********** Variable ");
+ fprintf(ficresphtmfr, "\n
********** Variable ");
fprintf(ficlog, "\n#********** Variable ");
- for (z1=1; z1<=cptcoveff; z1++) fprintf(ficlog, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]);
- fprintf(ficlog, "**********\n#");
+ for (z1=1; z1<=cptcoveff; z1++){
+ if(!FixedV[Tvaraff[z1]]){
+ printf( "V%d(fixed)=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,TnsdVar[Tvaraff[z1]])]);
+ fprintf(ficresp, "V%d(fixed)=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,TnsdVar[Tvaraff[z1]])]);
+ fprintf(ficresphtm, "V%d(fixed)=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,TnsdVar[Tvaraff[z1]])]);
+ fprintf(ficresphtmfr, "V%d(fixed)=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,TnsdVar[Tvaraff[z1]])]);
+ fprintf(ficlog, "V%d(fixed)=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,TnsdVar[Tvaraff[z1]])]);
+ }else{
+ printf( "V%d(varying)=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,TnsdVar[Tvaraff[z1]])]);
+ fprintf(ficresp, "V%d(varying)=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,TnsdVar[Tvaraff[z1]])]);
+ fprintf(ficresphtm, "V%d(varying)=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,TnsdVar[Tvaraff[z1]])]);
+ fprintf(ficresphtmfr, "V%d(varying)=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,TnsdVar[Tvaraff[z1]])]);
+ fprintf(ficlog, "V%d(varying)=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,TnsdVar[Tvaraff[z1]])]);
+ }
+ }
+ printf( "**********\n#");
+ fprintf(ficresp, "**********\n#");
+ fprintf(ficresphtm, "**********
\n");
+ fprintf(ficresphtmfr, "**********
\n");
+ fprintf(ficlog, "**********\n");
+ }
+ /*
+ Printing means of quantitative variables if any
+ */
+ for (z1=1; z1<= nqfveff; z1++) {
+ fprintf(ficlog,"Mean of fixed quantitative variable V%d on %.3g (weighted) individuals sum=%f", ncovcol+z1, idq[z1], meanq[z1]);
+ fprintf(ficlog,", mean=%.3g\n",meanq[z1]/idq[z1]);
+ if(weightopt==1){
+ printf(" Weighted mean and standard deviation of");
+ fprintf(ficlog," Weighted mean and standard deviation of");
+ fprintf(ficresphtmfr," Weighted mean and standard deviation of");
+ }
+ /* mu = \frac{w x}{\sum w}
+ var = \frac{\sum w (x-mu)^2}{\sum w} = \frac{w x^2}{\sum w} - mu^2
+ */
+ printf(" fixed quantitative variable V%d on %.3g (weighted) representatives of the population : %8.5g (%8.5g)\n", ncovcol+z1, idq[z1],meanq[z1]/idq[z1], sqrt(stdq[z1]/idq[z1]-meanq[z1]*meanq[z1]/idq[z1]/idq[z1]));
+ fprintf(ficlog," fixed quantitative variable V%d on %.3g (weighted) representatives of the population : %8.5g (%8.5g)\n", ncovcol+z1, idq[z1],meanq[z1]/idq[z1], sqrt(stdq[z1]/idq[z1]-meanq[z1]*meanq[z1]/idq[z1]/idq[z1]));
+ fprintf(ficresphtmfr," fixed quantitative variable V%d on %.3g (weighted) representatives of the population : %8.5g (%8.5g)\n", ncovcol+z1, idq[z1],meanq[z1]/idq[z1], sqrt(stdq[z1]/idq[z1]-meanq[z1]*meanq[z1]/idq[z1]/idq[z1])); + } + /* for (z1=1; z1<= nqtveff; z1++) { */ + /* for(m=1;m<=lastpass;m++){ */ + /* fprintf(ficresphtmfr,"V quantitative id %d, pass id=%d, mean=%f
\n", z1, m, meanqt[m][z1]); */ + /* } */ + /* } */ + + fprintf(ficresphtm,"
| Age | Prev(%d) | N(%d) | N | ",i,i); } - for(i=1; i<=nlstate;i++) - fprintf(ficresp, " Age Prev(%d) N(%d) N",i,i); - fprintf(ficresp, "\n"); + if((cptcoveff==0 && nj==1)|| nj==2 ) fprintf(ficresp, "\n"); + fprintf(ficresphtm, "\n"); - for(i=iagemin; i <= iagemax+3; i++){ - if(i==iagemax+3){ + /* Header of frequency table by age */ + fprintf(ficresphtmfr,"
|---|
| Age | "); + for(s2=-1; s2 <=nlstate+ndeath; s2++){ + for(m=-1; m <=nlstate+ndeath; m++){ + if(s2!=0 && m!=0) + fprintf(ficresphtmfr,"%d%d | ",s2,m); + } + } + fprintf(ficresphtmfr, "\n"); + + /* For each age */ + for(iage=iagemin; iage <= iagemax+3; iage++){ + fprintf(ficresphtm,"||||||||
|---|---|---|---|---|---|---|---|---|---|
| 0 | "); + }else if(iage==iagemax+2){ + fprintf(ficlog,"0"); + fprintf(ficresphtmfr,"|||||||||
| Unknown | "); + }else if(iage==iagemax+3){ fprintf(ficlog,"Total"); + fprintf(ficresphtmfr,"|||||||||
| Total | "); }else{ if(first==1){ first=0; printf("See log file for details...\n"); } - fprintf(ficlog,"Age %d", i); + fprintf(ficresphtmfr,"|||||||||
| %d | ",iage); + fprintf(ficlog,"Age %d", iage); } - for(jk=1; jk <=nlstate ; jk++){ - for(m=-1, pp[jk]=0; m <=nlstate+ndeath ; m++) - pp[jk] += freq[jk][m][i]; + for(s1=1; s1 <=nlstate ; s1++){ + for(m=-1, pp[s1]=0; m <=nlstate+ndeath ; m++) + pp[s1] += freq[s1][m][iage]; } - for(jk=1; jk <=nlstate ; jk++){ + for(s1=1; s1 <=nlstate ; s1++){ for(m=-1, pos=0; m <=0 ; m++) - pos += freq[jk][m][i]; - if(pp[jk]>=1.e-10){ + pos += freq[s1][m][iage]; + if(pp[s1]>=1.e-10){ if(first==1){ - printf(" %d.=%.0f loss[%d]=%.1f%%",jk,pp[jk],jk,100*pos/pp[jk]); + printf(" %d.=%.0f loss[%d]=%.1f%%",s1,pp[s1],s1,100*pos/pp[s1]); } - fprintf(ficlog," %d.=%.0f loss[%d]=%.1f%%",jk,pp[jk],jk,100*pos/pp[jk]); + fprintf(ficlog," %d.=%.0f loss[%d]=%.1f%%",s1,pp[s1],s1,100*pos/pp[s1]); }else{ if(first==1) - printf(" %d.=%.0f loss[%d]=NaNQ%%",jk,pp[jk],jk); - fprintf(ficlog," %d.=%.0f loss[%d]=NaNQ%%",jk,pp[jk],jk); + printf(" %d.=%.0f loss[%d]=NaNQ%%",s1,pp[s1],s1); + fprintf(ficlog," %d.=%.0f loss[%d]=NaNQ%%",s1,pp[s1],s1); } } - - for(jk=1; jk <=nlstate ; jk++){ - for(m=0, pp[jk]=0; m <=nlstate+ndeath; m++) - pp[jk] += freq[jk][m][i]; - } - for(jk=1,pos=0,posprop=0; jk <=nlstate ; jk++){ - pos += pp[jk]; - posprop += prop[jk][i]; + + for(s1=1; s1 <=nlstate ; s1++){ + /* posprop[s1]=0; */ + for(m=0, pp[s1]=0; m <=nlstate+ndeath; m++)/* Summing on all ages */ + pp[s1] += freq[s1][m][iage]; + } /* pp[s1] is the total number of transitions starting from state s1 and any ending status until this age */ + + for(s1=1,pos=0, pospropta=0.; s1 <=nlstate ; s1++){ + pos += pp[s1]; /* pos is the total number of transitions until this age */ + posprop[s1] += prop[s1][iage]; /* prop is the number of transitions from a live state + from s1 at age iage prop[s[m][iind]][(int)agev[m][iind]] += weight[iind] */ + pospropta += prop[s1][iage]; /* prop is the number of transitions from a live state + from s1 at age iage prop[s[m][iind]][(int)agev[m][iind]] += weight[iind] */ + } + + /* Writing ficresp */ + if(cptcoveff==0 && nj==1){ /* no covariate and first pass */ + if( iage <= iagemax){ + fprintf(ficresp," %d",iage); + } + }else if( nj==2){ + if( iage <= iagemax){ + fprintf(ficresp," %d",iage); + for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresp, " %d %d",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,TnsdVar[Tvaraff[z1]])]); + } } - for(jk=1; jk <=nlstate ; jk++){ + for(s1=1; s1 <=nlstate ; s1++){ if(pos>=1.e-5){ if(first==1) - printf(" %d.=%.0f prev[%d]=%.1f%%",jk,pp[jk],jk,100*pp[jk]/pos); - fprintf(ficlog," %d.=%.0f prev[%d]=%.1f%%",jk,pp[jk],jk,100*pp[jk]/pos); + printf(" %d.=%.0f prev[%d]=%.1f%%",s1,pp[s1],s1,100*pp[s1]/pos); + fprintf(ficlog," %d.=%.0f prev[%d]=%.1f%%",s1,pp[s1],s1,100*pp[s1]/pos); }else{ if(first==1) - printf(" %d.=%.0f prev[%d]=NaNQ%%",jk,pp[jk],jk); - fprintf(ficlog," %d.=%.0f prev[%d]=NaNQ%%",jk,pp[jk],jk); + printf(" %d.=%.0f prev[%d]=NaNQ%%",s1,pp[s1],s1); + fprintf(ficlog," %d.=%.0f prev[%d]=NaNQ%%",s1,pp[s1],s1); } - if( i <= iagemax){ + if( iage <= iagemax){ if(pos>=1.e-5){ - fprintf(ficresp," %d %.5f %.0f %.0f",i,prop[jk][i]/posprop, prop[jk][i],posprop); - /*probs[i][jk][j1]= pp[jk]/pos;*/ - /*printf("\ni=%d jk=%d j1=%d %.5f %.0f %.0f %f",i,jk,j1,pp[jk]/pos, pp[jk],pos,probs[i][jk][j1]);*/ + if(cptcoveff==0 && nj==1){ /* no covariate and first pass */ + fprintf(ficresp," %.5f %.0f %.0f",prop[s1][iage]/pospropta, prop[s1][iage],pospropta); + }else if( nj==2){ + fprintf(ficresp," %.5f %.0f %.0f",prop[s1][iage]/pospropta, prop[s1][iage],pospropta); + } + fprintf(ficresphtm,"%d | %.5f | %.0f | %.0f | ",iage,prop[s1][iage]/pospropta, prop[s1][iage],pospropta); + /*probs[iage][s1][j1]= pp[s1]/pos;*/ + /*printf("\niage=%d s1=%d j1=%d %.5f %.0f %.0f %f",iage,s1,j1,pp[s1]/pos, pp[s1],pos,probs[iage][s1][j1]);*/ + } else{ + if((cptcoveff==0 && nj==1)|| nj==2 ) fprintf(ficresp," NaNq %.0f %.0f",prop[s1][iage],pospropta); + fprintf(ficresphtm,"%d | NaNq | %.0f | %.0f | ",iage, prop[s1][iage],pospropta); } - else - fprintf(ficresp," %d NaNq %.0f %.0f",i,prop[jk][i],posprop); } + pospropt[s1] +=posprop[s1]; + } /* end loop s1 */ + /* pospropt=0.; */ + for(s1=-1; s1 <=nlstate+ndeath; s1++){ + for(m=-1; m <=nlstate+ndeath; m++){ + if(freq[s1][m][iage] !=0 ) { /* minimizing output */ + if(first==1){ + printf(" %d%d=%.0f",s1,m,freq[s1][m][iage]); + } + /* printf(" %d%d=%.0f",s1,m,freq[s1][m][iage]); */ + fprintf(ficlog," %d%d=%.0f",s1,m,freq[s1][m][iage]); + } + if(s1!=0 && m!=0) + fprintf(ficresphtmfr,"%.0f | ",freq[s1][m][iage]); + } + } /* end loop s1 */ + posproptt=0.; + for(s1=1; s1 <=nlstate; s1++){ + posproptt += pospropt[s1]; + } + fprintf(ficresphtmfr,"
| Tot | "); + for(s1=1; s1 <=nlstate ; s1++){ + if(posproptt < 1.e-5){ + fprintf(ficresphtm,"Nanq | %.0f | %.0f | ",pospropt[s1],posproptt); + }else{ + fprintf(ficresphtm,"%.5f | %.0f | %.0f | ",pospropt[s1]/posproptt,pospropt[s1],posproptt); + } + } + fprintf(ficresphtm,"
This combination (%d) is not valid and no result will be produced
",j1); + fprintf(ficresphtmfr,"\nThis combination (%d) is not valid and no result will be produced
",j1); + fprintf(ficlog,"# This combination (%d) is not valid and no result will be produced\n",j1); + printf("# This combination (%d) is not valid and no result will be produced\n",j1); + invalidvarcomb[j1]=1; + }else{ + fprintf(ficresphtm,"\nThis combination (%d) is valid and result will be produced (or no resultline).
",j1); + invalidvarcomb[j1]=0; + } + fprintf(ficresphtmfr,"\n"); + fprintf(ficlog,"\n"); + if(j!=0){ + printf("#Freqsummary: Starting values for combination j1=%d:\n", j1); + for(i=1,s1=1; i <=nlstate; i++){ + for(k=1; k <=(nlstate+ndeath); k++){ + if (k != i) { + for(jj=1; jj <=ncovmodel; jj++){ /* For counting s1 */ + if(jj==1){ /* Constant case (in fact cste + age) */ + if(j1==1){ /* All dummy covariates to zero */ + freq[i][k][iagemax+4]=freq[i][k][iagemax+3]; /* Stores case 0 0 0 */ + freq[i][i][iagemax+4]=freq[i][i][iagemax+3]; /* Stores case 0 0 0 */ + printf("%d%d ",i,k); + fprintf(ficlog,"%d%d ",i,k); + printf("%12.7f ln(%.0f/%.0f)= %f, OR=%f sd=%f \n",p[s1],freq[i][k][iagemax+3],freq[i][i][iagemax+3], log(freq[i][k][iagemax+3]/freq[i][i][iagemax+3]),freq[i][k][iagemax+3]/freq[i][i][iagemax+3], sqrt(1/freq[i][k][iagemax+3]+1/freq[i][i][iagemax+3])); + fprintf(ficlog,"%12.7f ln(%.0f/%.0f)= %12.7f \n",p[s1],freq[i][k][iagemax+3],freq[i][i][iagemax+3], log(freq[i][k][iagemax+3]/freq[i][i][iagemax+3])); + pstart[s1]= log(freq[i][k][iagemax+3]/freq[i][i][iagemax+3]); + } + }else if((j1==1) && (jj==2 || nagesqr==1)){ /* age or age*age parameter without covariate V4*age (to be done later) */ + for(iage=iagemin; iage <= iagemax+3; iage++){ + x[iage]= (double)iage; + y[iage]= log(freq[i][k][iage]/freq[i][i][iage]); + /* printf("i=%d, k=%d, s1=%d, j1=%d, jj=%d, y[%d]=%f\n",i,k,s1,j1,jj, iage, y[iage]); */ + } + /* Some are not finite, but linreg will ignore these ages */ + no=0; + linreg(iagemin,iagemax,&no,x,y,&a,&b,&r, &sa, &sb ); /* y= a+b*x with standard errors */ + pstart[s1]=b; + pstart[s1-1]=a; + }else if( j1!=1 && (j1==2 || (log(j1-1.)/log(2.)-(int)(log(j1-1.)/log(2.))) <0.010) && ( TvarsDind[(int)(log(j1-1.)/log(2.))+1]+2+nagesqr == jj) && Dummy[jj-2-nagesqr]==0){ /* We want only if the position, jj, in model corresponds to unique covariate equal to 1 in j1 combination */ + printf("j1=%d, jj=%d, (int)(log(j1-1.)/log(2.))+1=%d, TvarsDind[(int)(log(j1-1.)/log(2.))+1]=%d\n",j1, jj,(int)(log(j1-1.)/log(2.))+1,TvarsDind[(int)(log(j1-1.)/log(2.))+1]); + printf("j1=%d, jj=%d, (log(j1-1.)/log(2.))+1=%f, TvarsDind[(int)(log(j1-1.)/log(2.))+1]=%d\n",j1, jj,(log(j1-1.)/log(2.))+1,TvarsDind[(int)(log(j1-1.)/log(2.))+1]); + pstart[s1]= log((freq[i][k][iagemax+3]/freq[i][i][iagemax+3])/(freq[i][k][iagemax+4]/freq[i][i][iagemax+4])); + printf("%d%d ",i,k); + fprintf(ficlog,"%d%d ",i,k); + printf("s1=%d,i=%d,k=%d,p[%d]=%12.7f ln((%.0f/%.0f)/(%.0f/%.0f))= %f, OR=%f sd=%f \n",s1,i,k,s1,p[s1],freq[i][k][iagemax+3],freq[i][i][iagemax+3],freq[i][k][iagemax+4],freq[i][i][iagemax+4], log((freq[i][k][iagemax+3]/freq[i][i][iagemax+3])/(freq[i][k][iagemax+4]/freq[i][i][iagemax+4])),(freq[i][k][iagemax+3]/freq[i][i][iagemax+3])/(freq[i][k][iagemax+4]/freq[i][i][iagemax+4]), sqrt(1/freq[i][k][iagemax+3]+1/freq[i][i][iagemax+3]+1/freq[i][k][iagemax+4]+1/freq[i][i][iagemax+4])); + }else{ /* Other cases, like quantitative fixed or varying covariates */ + ; + } + /* printf("%12.7f )", param[i][jj][k]); */ + /* fprintf(ficlog,"%12.7f )", param[i][jj][k]); */ + s1++; + } /* end jj */ + } /* end k!= i */ + } /* end k */ + } /* end i, s1 */ + } /* end j !=0 */ + } /* end selected combination of covariate j1 */ + if(j==0){ /* We can estimate starting values from the occurences in each case */ + printf("#Freqsummary: Starting values for the constants:\n"); + fprintf(ficlog,"\n"); + for(i=1,s1=1; i <=nlstate; i++){ + for(k=1; k <=(nlstate+ndeath); k++){ + if (k != i) { + printf("%d%d ",i,k); + fprintf(ficlog,"%d%d ",i,k); + for(jj=1; jj <=ncovmodel; jj++){ + pstart[s1]=p[s1]; /* Setting pstart to p values by default */ + if(jj==1){ /* Age has to be done */ + pstart[s1]= log(freq[i][k][iagemax+3]/freq[i][i][iagemax+3]); + printf("%12.7f ln(%.0f/%.0f)= %12.7f ",p[s1],freq[i][k][iagemax+3],freq[i][i][iagemax+3], log(freq[i][k][iagemax+3]/freq[i][i][iagemax+3])); + fprintf(ficlog,"%12.7f ln(%.0f/%.0f)= %12.7f ",p[s1],freq[i][k][iagemax+3],freq[i][i][iagemax+3], log(freq[i][k][iagemax+3]/freq[i][i][iagemax+3])); + } + /* printf("%12.7f )", param[i][jj][k]); */ + /* fprintf(ficlog,"%12.7f )", param[i][jj][k]); */ + s1++; + } + printf("\n"); + fprintf(ficlog,"\n"); + } + } + } /* end of state i */ + printf("#Freqsummary\n"); + fprintf(ficlog,"\n"); + for(s1=-1; s1 <=nlstate+ndeath; s1++){ + for(s2=-1; s2 <=nlstate+ndeath; s2++){ + /* param[i]|j][k]= freq[s1][s2][iagemax+3] */ + printf(" %d%d=%.0f",s1,s2,freq[s1][s2][iagemax+3]); + fprintf(ficlog," %d%d=%.0f",s1,s2,freq[s1][s2][iagemax+3]); + /* if(freq[s1][s2][iage] !=0 ) { /\* minimizing output *\/ */ + /* printf(" %d%d=%.0f",s1,s2,freq[s1][s2][iagemax+3]); */ + /* fprintf(ficlog," %d%d=%.0f",s1,s2,freq[s1][s2][iagemax+3]); */ + /* } */ + } + } /* end loop s1 */ + + printf("\n"); + fprintf(ficlog,"\n"); + } /* end j=0 */ + } /* end j */ + + if(mle == -2){ /* We want to use these values as starting values */ + for(i=1, jk=1; i <=nlstate; i++){ + for(j=1; j <=nlstate+ndeath; j++){ + if(j!=i){ + /*ca[0]= k+'a'-1;ca[1]='\0';*/ + printf("%1d%1d",i,j); + fprintf(ficparo,"%1d%1d",i,j); + for(k=1; k<=ncovmodel;k++){ + /* printf(" %lf",param[i][j][k]); */ + /* fprintf(ficparo," %lf",param[i][j][k]); */ + p[jk]=pstart[jk]; + printf(" %f ",pstart[jk]); + fprintf(ficparo," %f ",pstart[jk]); + jk++; + } + printf("\n"); + fprintf(ficparo,"\n"); } - - for(jk=-1; jk <=nlstate+ndeath; jk++) - for(m=-1; m <=nlstate+ndeath; m++) - if(freq[jk][m][i] !=0 ) { - if(first==1) - printf(" %d%d=%.0f",jk,m,freq[jk][m][i]); - fprintf(ficlog," %d%d=%.0f",jk,m,freq[jk][m][i]); - } - if(i <= iagemax) - fprintf(ficresp,"\n"); - if(first==1) - printf("Others in log...\n"); - fprintf(ficlog,"\n"); } - /*}*/ - } + } + } /* end mle=-2 */ dateintmean=dateintsum/k2cpt; - + date2dmy(dateintmean,&jintmean,&mintmean,&aintmean); + fclose(ficresp); - free_ma3x(freq,-5,nlstate+ndeath,-5,nlstate+ndeath, iagemin, iagemax+3); + fclose(ficresphtm); + fclose(ficresphtmfr); + free_vector(idq,1,nqfveff); + free_vector(meanq,1,nqfveff); + free_vector(stdq,1,nqfveff); + free_matrix(meanqt,1,lastpass,1,nqtveff); + free_vector(x, iagemin-AGEMARGE, iagemax+4+AGEMARGE); + free_vector(y, iagemin-AGEMARGE, iagemax+4+AGEMARGE); + free_ma3x(freq,-5,nlstate+ndeath,-5,nlstate+ndeath, iagemin-AGEMARGE, iagemax+4+AGEMARGE); + free_vector(pospropt,1,nlstate); + free_vector(posprop,1,nlstate); + free_matrix(prop,1,nlstate,iagemin-AGEMARGE, iagemax+4+AGEMARGE); free_vector(pp,1,nlstate); - free_matrix(prop,1,nlstate,iagemin, iagemax+3); - /* End of Freq */ + /* End of freqsummary */ +} + +/* Simple linear regression */ +int linreg(int ifi, int ila, int *no, const double x[], const double y[], double* a, double* b, double* r, double* sa, double * sb) { + + /* y=a+bx regression */ + double sumx = 0.0; /* sum of x */ + double sumx2 = 0.0; /* sum of x**2 */ + double sumxy = 0.0; /* sum of x * y */ + double sumy = 0.0; /* sum of y */ + double sumy2 = 0.0; /* sum of y**2 */ + double sume2 = 0.0; /* sum of square or residuals */ + double yhat; + + double denom=0; + int i; + int ne=*no; + + for ( i=ifi, ne=0;i<=ila;i++) { + if(!isfinite(x[i]) || !isfinite(y[i])){ + /* printf(" x[%d]=%f, y[%d]=%f\n",i,x[i],i,y[i]); */ + continue; + } + ne=ne+1; + sumx += x[i]; + sumx2 += x[i]*x[i]; + sumxy += x[i] * y[i]; + sumy += y[i]; + sumy2 += y[i]*y[i]; + denom = (ne * sumx2 - sumx*sumx); + /* printf("ne=%d, i=%d,x[%d]=%f, y[%d]=%f sumx=%f, sumx2=%f, sumxy=%f, sumy=%f, sumy2=%f, denom=%f\n",ne,i,i,x[i],i,y[i], sumx, sumx2,sumxy, sumy, sumy2,denom); */ + } + + denom = (ne * sumx2 - sumx*sumx); + if (denom == 0) { + // vertical, slope m is infinity + *b = INFINITY; + *a = 0; + if (r) *r = 0; + return 1; + } + + *b = (ne * sumxy - sumx * sumy) / denom; + *a = (sumy * sumx2 - sumx * sumxy) / denom; + if (r!=NULL) { + *r = (sumxy - sumx * sumy / ne) / /* compute correlation coeff */ + sqrt((sumx2 - sumx*sumx/ne) * + (sumy2 - sumy*sumy/ne)); + } + *no=ne; + for ( i=ifi, ne=0;i<=ila;i++) { + if(!isfinite(x[i]) || !isfinite(y[i])){ + /* printf(" x[%d]=%f, y[%d]=%f\n",i,x[i],i,y[i]); */ + continue; + } + ne=ne+1; + yhat = y[i] - *a -*b* x[i]; + sume2 += yhat * yhat ; + + denom = (ne * sumx2 - sumx*sumx); + /* printf("ne=%d, i=%d,x[%d]=%f, y[%d]=%f sumx=%f, sumx2=%f, sumxy=%f, sumy=%f, sumy2=%f, denom=%f\n",ne,i,i,x[i],i,y[i], sumx, sumx2,sumxy, sumy, sumy2,denom); */ + } + *sb = sqrt(sume2/(double)(ne-2)/(sumx2 - sumx * sumx /(double)ne)); + *sa= *sb * sqrt(sumx2/ne); + + return 0; } /************ Prevalence ********************/ @@ -2455,10 +7708,13 @@ void prevalence(double ***probs, double We still use firstpass and lastpass as another selection. */ - int i, m, jk, k1, i1, j1, bool, z1,j; - double ***freq; /* Frequencies */ - double *pp, **prop; - double pos,posprop; + int i, m, jk, j1, bool, z1,j, iv; + int mi; /* Effective wave */ + int iage; + double agebegin; /*, ageend;*/ + + double **prop; + double posprop; double y2; /* in fractional years */ int iagemin, iagemax; int first; /** to stop verbosity which is redirected to log file */ @@ -2466,111 +7722,206 @@ void prevalence(double ***probs, double iagemin= (int) agemin; iagemax= (int) agemax; /*pp=vector(1,nlstate);*/ - prop=matrix(1,nlstate,iagemin,iagemax+3); + prop=matrix(1,nlstate,iagemin-AGEMARGE,iagemax+4+AGEMARGE); /* freq=ma3x(-1,nlstate+ndeath,-1,nlstate+ndeath,iagemin,iagemax+3);*/ j1=0; /*j=cptcoveff;*/ if (cptcovn<1) {j=1;ncodemax[1]=1;} - first=1; - for(j1=1; j1<= (int) pow(2,cptcoveff);j1++){ - /*for(i1=1; i1<=ncodemax[k1];i1++){ - j1++;*/ - - for (i=1; i<=nlstate; i++) - for(m=iagemin; m <= iagemax+3; m++) - prop[i][m]=0.0; - - for (i=1; i<=imx; i++) { /* Each individual */ - bool=1; - if (cptcovn>0) { - for (z1=1; z1<=cptcoveff; z1++) - if (covar[Tvaraff[z1]][i]!= nbcode[Tvaraff[z1]][codtab[j1][z1]]) + first=0; + for(j1=1; j1<= (int) pow(2,cptcoveff);j1++){ /* For each combination of simple dummy covariates */ + for (i=1; i<=nlstate; i++) + for(iage=iagemin-AGEMARGE; iage <= iagemax+4+AGEMARGE; iage++) + prop[i][iage]=0.0; + printf("Prevalence combination of varying and fixed dummies %d\n",j1); + /* fprintf(ficlog," V%d=%d ",Tvaraff[j1],nbcode[Tvaraff[j1]][codtabm(k,j1)]); */ + fprintf(ficlog,"Prevalence combination of varying and fixed dummies %d\n",j1); + + for (i=1; i<=imx; i++) { /* Each individual */ + bool=1; + /* for(m=firstpass; m<=lastpass; m++){/\* Other selection (we can limit to certain interviews*\/ */ + for(mi=1; miComputing probabilities of dying over estepm months as a weighted average (i.e global mortality independent of initial healh state)
%s
\n",digitp); + + varppt = matrix(nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath); + pstamp(ficresvij); + fprintf(ficresvij,"# Variance and covariance of health expectancies e.j \n# (weighted average of eij where weights are "); + if(popbased==1) + fprintf(ficresvij,"the age specific prevalence observed (cross-sectionally) in the population i.e cross-sectionally\n in each health state (popbased=1) (mobilav=%d\n",mobilav); + else + fprintf(ficresvij,"the age specific period (stable) prevalences in each health state \n"); + fprintf(ficresvij,"# Age"); + for(i=1; i<=nlstate;i++) + for(j=1; j<=nlstate;j++) + fprintf(ficresvij," Cov(e.%1d, e.%1d)",i,j); + fprintf(ficresvij,"\n"); + + xp=vector(1,npar); + dnewm=matrix(1,nlstate,1,npar); + doldm=matrix(1,nlstate,1,nlstate); + dnewmp= matrix(nlstate+1,nlstate+ndeath,1,npar); + doldmp= matrix(nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath); + + gradgp=matrix(1,npar,nlstate+1,nlstate+ndeath); + gpp=vector(nlstate+1,nlstate+ndeath); + gmp=vector(nlstate+1,nlstate+ndeath); + trgradgp =matrix(nlstate+1,nlstate+ndeath,1,npar); /* mu or p point j*/ + + if(estepm < stepm){ + printf ("Problem %d lower than %d\n",estepm, stepm); + } + else hstepm=estepm; + /* For example we decided to compute the life expectancy with the smallest unit */ + /* hstepm beeing the number of stepms, if hstepm=1 the length of hstepm is stepm. + nhstepm is the number of hstepm from age to agelim + nstepm is the number of stepm from age to agelim. + Look at function hpijx to understand why because of memory size limitations, + we decided (b) to get a life expectancy respecting the most precise curvature of the + survival function given by stepm (the optimization length). Unfortunately it + means that if the survival funtion is printed every two years of age and if + you sum them up and add 1 year (area under the trapezoids) you won't get the same + results. So we changed our mind and took the option of the best precision. + */ + hstepm=hstepm/stepm; /* Typically in stepm units, if stepm=6 & estepm=24 , = 24/6 months = 4 */ + agelim = AGESUP; + for (age=bage; age<=fage; age ++){ /* If stepm=6 months */ + nstepm=(int) rint((agelim-age)*YEARM/stepm); /* Typically 20 years = 20*12/6=40 */ + nhstepm = nstepm/hstepm;/* Expressed in hstepm, typically nhstepm=40/4=10 */ + p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); + gradg=ma3x(0,nhstepm,1,npar,1,nlstate); + gp=matrix(0,nhstepm,1,nlstate); + gm=matrix(0,nhstepm,1,nlstate); + + + for(theta=1; theta <=npar; theta++){ + for(i=1; i<=npar; i++){ /* Computes gradient x + delta*/ + xp[i] = x[i] + (i==theta ?delti[theta]:0); + } + /**< Computes the prevalence limit with parameter theta shifted of delta up to ftolpl precision and + * returns into prlim . + */ + prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyearp,ij, nres); + + /* If popbased = 1 we use crossection prevalences. Previous step is useless but prlim is created */ + if (popbased==1) { + if(mobilav ==0){ + for(i=1; i<=nlstate;i++) + prlim[i][i]=probs[(int)age][i][ij]; + }else{ /* mobilav */ + for(i=1; i<=nlstate;i++) + prlim[i][i]=mobaverage[(int)age][i][ij]; + } + } + /**< Computes the shifted transition matrix \f$ {}{h}_p^{ij}x\f$ at horizon h. + */ + hpxij(p3mat,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, ij,nres); /* Returns p3mat[i][j][h] for h=0 to nhstepm */ + /**< And for each alive state j, sums over i \f$ w^i_x {}{h}_p^{ij}x\f$, which are the probability + * at horizon h in state j including mortality. + */ + for(j=1; j<= nlstate; j++){ + for(h=0; h<=nhstepm; h++){ + for(i=1, gp[h][j]=0.;i<=nlstate;i++) + gp[h][j] += prlim[i][i]*p3mat[i][j][h]; + } + } + /* Next for computing shifted+ probability of death (h=1 means + computed over hstepm matrices product = hstepm*stepm months) + as a weighted average of prlim(i) * p(i,j) p.3=w1*p13 + w2*p23 . + */ + for(j=nlstate+1;j<=nlstate+ndeath;j++){ + for(i=1,gpp[j]=0.; i<= nlstate; i++) + gpp[j] += prlim[i][i]*p3mat[i][j][1]; + } + + /* Again with minus shift */ + + for(i=1; i<=npar; i++) /* Computes gradient x - delta */ + xp[i] = x[i] - (i==theta ?delti[theta]:0); + + prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyearp, ij, nres); + + if (popbased==1) { + if(mobilav ==0){ + for(i=1; i<=nlstate;i++) + prlim[i][i]=probs[(int)age][i][ij]; + }else{ /* mobilav */ + for(i=1; i<=nlstate;i++) + prlim[i][i]=mobaverage[(int)age][i][ij]; + } + } + + hpxij(p3mat,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, ij,nres); + + for(j=1; j<= nlstate; j++){ /* Sum of wi * eij = e.j */ + for(h=0; h<=nhstepm; h++){ + for(i=1, gm[h][j]=0.;i<=nlstate;i++) + gm[h][j] += prlim[i][i]*p3mat[i][j][h]; + } + } + /* This for computing probability of death (h=1 means + computed over hstepm matrices product = hstepm*stepm months) + as a weighted average of prlim. + */ + for(j=nlstate+1;j<=nlstate+ndeath;j++){ + for(i=1,gmp[j]=0.; i<= nlstate; i++) + gmp[j] += prlim[i][i]*p3mat[i][j][1]; + } + /* end shifting computations */ + + /**< Computing gradient matrix at horizon h + */ + for(j=1; j<= nlstate; j++) /* vareij */ + for(h=0; h<=nhstepm; h++){ + gradg[h][theta][j]= (gp[h][j]-gm[h][j])/2./delti[theta]; + } + /**< Gradient of overall mortality p.3 (or p.j) + */ + for(j=nlstate+1; j<= nlstate+ndeath; j++){ /* var mu mortality from j */ + gradgp[theta][j]= (gpp[j]-gmp[j])/2./delti[theta]; + } + + } /* End theta */ + + /* We got the gradient matrix for each theta and state j */ + trgradg =ma3x(0,nhstepm,1,nlstate,1,npar); /* veij */ + + for(h=0; h<=nhstepm; h++) /* veij */ + for(j=1; j<=nlstate;j++) + for(theta=1; theta <=npar; theta++) + trgradg[h][j][theta]=gradg[h][theta][j]; + + for(j=nlstate+1; j<=nlstate+ndeath;j++) /* mu */ + for(theta=1; theta <=npar; theta++) + trgradgp[j][theta]=gradgp[theta][j]; + /**< as well as its transposed matrix + */ + + hf=hstepm*stepm/YEARM; /* Duration of hstepm expressed in year unit. */ + for(i=1;i<=nlstate;i++) + for(j=1;j<=nlstate;j++) + vareij[i][j][(int)age] =0.; + + /* Computing trgradg by matcov by gradg at age and summing over h + * and k (nhstepm) formula 15 of article + * Lievre-Brouard-Heathcote + */ + + for(h=0;h<=nhstepm;h++){ + for(k=0;k<=nhstepm;k++){ + matprod2(dnewm,trgradg[h],1,nlstate,1,npar,1,npar,matcov); + matprod2(doldm,dnewm,1,nlstate,1,npar,1,nlstate,gradg[k]); + for(i=1;i<=nlstate;i++) + for(j=1;j<=nlstate;j++) + vareij[i][j][(int)age] += doldm[i][j]*hf*hf; + } + } + + /* pptj is p.3 or p.j = trgradgp by cov by gradgp, variance of + * p.j overall mortality formula 19 but computed directly because + * we compute the grad (wix pijx) instead of grad (pijx),even if + * wix is independent of theta. + */ + matprod2(dnewmp,trgradgp,nlstate+1,nlstate+ndeath,1,npar,1,npar,matcov); + matprod2(doldmp,dnewmp,nlstate+1,nlstate+ndeath,1,npar,nlstate+1,nlstate+ndeath,gradgp); + for(j=nlstate+1;j<=nlstate+ndeath;j++) + for(i=nlstate+1;i<=nlstate+ndeath;i++) + varppt[j][i]=doldmp[j][i]; + /* end ppptj */ + /* x centered again */ + + prevalim(prlim,nlstate,x,age,oldm,savm,ftolpl,ncvyearp,ij, nres); + + if (popbased==1) { + if(mobilav ==0){ + for(i=1; i<=nlstate;i++) + prlim[i][i]=probs[(int)age][i][ij]; + }else{ /* mobilav */ + for(i=1; i<=nlstate;i++) + prlim[i][i]=mobaverage[(int)age][i][ij]; + } + } + + /* This for computing probability of death (h=1 means + computed over hstepm (estepm) matrices product = hstepm*stepm months) + as a weighted average of prlim. + */ + hpxij(p3mat,nhstepm,age,hstepm,x,nlstate,stepm,oldm,savm, ij, nres); + for(j=nlstate+1;j<=nlstate+ndeath;j++){ + for(i=1,gmp[j]=0.;i<= nlstate; i++) + gmp[j] += prlim[i][i]*p3mat[i][j][1]; + } + /* end probability of death */ + + fprintf(ficresprobmorprev,"%3d %d ",(int) age, ij); + for(j=nlstate+1; j<=(nlstate+ndeath);j++){ + fprintf(ficresprobmorprev," %11.3e %11.3e",gmp[j], sqrt(varppt[j][j])); + for(i=1; i<=nlstate;i++){ + fprintf(ficresprobmorprev," %11.3e %11.3e ",prlim[i][i],p3mat[i][j][1]); + } + } + fprintf(ficresprobmorprev,"\n"); + + fprintf(ficresvij,"%.0f ",age ); + for(i=1; i<=nlstate;i++) + for(j=1; j<=nlstate;j++){ + fprintf(ficresvij," %.4f", vareij[i][j][(int)age]); + } + fprintf(ficresvij,"\n"); + free_matrix(gp,0,nhstepm,1,nlstate); + free_matrix(gm,0,nhstepm,1,nlstate); + free_ma3x(gradg,0,nhstepm,1,npar,1,nlstate); + free_ma3x(trgradg,0,nhstepm,1,nlstate,1,npar); + free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); + } /* End age */ + free_vector(gpp,nlstate+1,nlstate+ndeath); + free_vector(gmp,nlstate+1,nlstate+ndeath); + free_matrix(gradgp,1,npar,nlstate+1,nlstate+ndeath); + free_matrix(trgradgp,nlstate+1,nlstate+ndeath,1,npar); /* mu or p point j*/ + /* fprintf(ficgp,"\nunset parametric;unset label; set ter png small size 320, 240"); */ + fprintf(ficgp,"\nunset parametric;unset label; set ter svg size 640, 480"); + /* for(j=nlstate+1; j<= nlstate+ndeath; j++){ *//* Only the first actually */ + fprintf(ficgp,"\n set log y; unset log x;set xlabel \"Age\"; set ylabel \"Force of mortality (year-1)\";"); + fprintf(ficgp,"\nset out \"%s%s.svg\";",subdirf3(optionfilefiname,"VARMUPTJGR-",digitp),digit); + /* fprintf(ficgp,"\n plot \"%s\" u 1:($3*%6.3f) not w l 1 ",fileresprobmorprev,YEARM/estepm); */ + /* fprintf(ficgp,"\n replot \"%s\" u 1:(($3+1.96*$4)*%6.3f) t \"95\%% interval\" w l 2 ",fileresprobmorprev,YEARM/estepm); */ + /* fprintf(ficgp,"\n replot \"%s\" u 1:(($3-1.96*$4)*%6.3f) not w l 2 ",fileresprobmorprev,YEARM/estepm); */ + fprintf(ficgp,"\n plot \"%s\" u 1:($3) not w l lt 1 ",subdirf(fileresprobmorprev)); + fprintf(ficgp,"\n replot \"%s\" u 1:(($3+1.96*$4)) t \"95%% interval\" w l lt 2 ",subdirf(fileresprobmorprev)); + fprintf(ficgp,"\n replot \"%s\" u 1:(($3-1.96*$4)) not w l lt 2 ",subdirf(fileresprobmorprev)); + fprintf(fichtm,"\n
File (multiple files are possible if covariates are present): %s\n",subdirf(fileresprobmorprev),subdirf(fileresprobmorprev)); + fprintf(fichtm,"\n
Probability is computed over estepm=%d months.
![](\"%s%s.svg\")
\n", estepm,subdirf3(optionfilefiname,"VARMUPTJGR-",digitp),digit); + /* fprintf(fichtm,"\n
Probability is computed over estepm=%d months and then divided by estepm and multiplied by %.0f in order to have the probability to die over a year
![](\"varmuptjgr%s%s.svg\")
\n", stepm,YEARM,digitp,digit); + */ + /* fprintf(ficgp,"\nset out \"varmuptjgr%s%s%s.svg\";replot;",digitp,optionfilefiname,digit); */ + fprintf(ficgp,"\nset out;\nset out \"%s%s.svg\";replot;set out;\n",subdirf3(optionfilefiname,"VARMUPTJGR-",digitp),digit); - char fileresprobmorprev[FILENAMELENGTH]; + free_vector(xp,1,npar); + free_matrix(doldm,1,nlstate,1,nlstate); + free_matrix(dnewm,1,nlstate,1,npar); + free_matrix(doldmp,nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath); + free_matrix(dnewmp,nlstate+1,nlstate+ndeath,1,npar); + free_matrix(varppt,nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath); + /* if (mobilav!=0) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX); */ + fclose(ficresprobmorprev); + fflush(ficgp); + fflush(fichtm); + } /* end varevsij */ - if(popbased==1){ - if(mobilav!=0) - strcpy(digitp,"-populbased-mobilav-"); - else strcpy(digitp,"-populbased-nomobil-"); - } - else - strcpy(digitp,"-stablbased-"); - - if (mobilav!=0) { - mobaverage= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX); - if (movingaverage(probs, bage, fage, mobaverage,mobilav)!=0){ - fprintf(ficlog," Error in movingaverage mobilav=%d\n",mobilav); - printf(" Error in movingaverage mobilav=%d\n",mobilav); - } - } +/************ Variance of prevlim ******************/ + void varprevlim(char fileresvpl[], FILE *ficresvpl, double **varpl, double **matcov, double x[], double delti[], int nlstate, int stepm, double bage, double fage, double **oldm, double **savm, double **prlim, double ftolpl, int *ncvyearp, int ij, char strstart[], int nres) +{ + /* Variance of prevalence limit for each state ij using current parameters x[] and estimates of neighbourhood give by delti*/ + /* double **prevalim(double **prlim, int nlstate, double *xp, double age, double **oldm, double **savm,double ftolpl);*/ - strcpy(fileresprobmorprev,"prmorprev"); - sprintf(digit,"%-d",ij); - /*printf("DIGIT=%s, ij=%d ijr=%-d|\n",digit, ij,ij);*/ - strcat(fileresprobmorprev,digit); /* Tvar to be done */ - strcat(fileresprobmorprev,digitp); /* Popbased or not, mobilav or not */ - strcat(fileresprobmorprev,fileres); - if((ficresprobmorprev=fopen(fileresprobmorprev,"w"))==NULL) { - printf("Problem with resultfile: %s\n", fileresprobmorprev); - fprintf(ficlog,"Problem with resultfile: %s\n", fileresprobmorprev); - } - printf("Computing total mortality p.j=w1*p1j+w2*p2j+..: result on file '%s' \n",fileresprobmorprev); - - fprintf(ficlog,"Computing total mortality p.j=w1*p1j+w2*p2j+..: result on file '%s' \n",fileresprobmorprev); - pstamp(ficresprobmorprev); - fprintf(ficresprobmorprev,"# probabilities of dying before estepm=%d months for people of exact age and weighted probabilities w1*p1j+w2*p2j+... stand dev in()\n",estepm); - fprintf(ficresprobmorprev,"# Age cov=%-d",ij); - for(j=nlstate+1; j<=(nlstate+ndeath);j++){ - fprintf(ficresprobmorprev," p.%-d SE",j); - for(i=1; i<=nlstate;i++) - fprintf(ficresprobmorprev," w%1d p%-d%-d",i,i,j); - } - fprintf(ficresprobmorprev,"\n"); - fprintf(ficgp,"\n# Routine varevsij"); - /* fprintf(fichtm, "#Local time at start: %s", strstart);*/ - fprintf(fichtm,"\n
Computing probabilities of dying over estepm months as a weighted average (i.e global mortality independent of initial healh state)
%s
\n",digitp); -/* } */ - varppt = matrix(nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath); - pstamp(ficresvij); - fprintf(ficresvij,"# Variance and covariance of health expectancies e.j \n# (weighted average of eij where weights are "); - if(popbased==1) - fprintf(ficresvij,"the age specific prevalence observed (cross-sectionally) in the population i.e cross-sectionally\n in each health state (popbased=1) (mobilav=%d\n",mobilav); - else - fprintf(ficresvij,"the age specific period (stable) prevalences in each health state \n"); - fprintf(ficresvij,"# Age"); + double **dnewmpar,**doldm; + int i, j, nhstepm, hstepm; + double *xp; + double *gp, *gm; + double **gradg, **trgradg; + double **mgm, **mgp; + double age,agelim; + int theta; + + pstamp(ficresvpl); + fprintf(ficresvpl,"# Standard deviation of period (forward stable) prevalences \n"); + fprintf(ficresvpl,"# Age "); + if(nresult >=1) + fprintf(ficresvpl," Result# "); for(i=1; i<=nlstate;i++) - for(j=1; j<=nlstate;j++) - fprintf(ficresvij," Cov(e.%1d, e.%1d)",i,j); - fprintf(ficresvij,"\n"); + fprintf(ficresvpl," %1d-%1d",i,i); + fprintf(ficresvpl,"\n"); xp=vector(1,npar); - dnewm=matrix(1,nlstate,1,npar); + dnewmpar=matrix(1,nlstate,1,npar); doldm=matrix(1,nlstate,1,nlstate); - dnewmp= matrix(nlstate+1,nlstate+ndeath,1,npar); - doldmp= matrix(nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath); - - gradgp=matrix(1,npar,nlstate+1,nlstate+ndeath); - gpp=vector(nlstate+1,nlstate+ndeath); - gmp=vector(nlstate+1,nlstate+ndeath); - trgradgp =matrix(nlstate+1,nlstate+ndeath,1,npar); /* mu or p point j*/ - if(estepm < stepm){ - printf ("Problem %d lower than %d\n",estepm, stepm); - } - else hstepm=estepm; - /* For example we decided to compute the life expectancy with the smallest unit */ - /* hstepm beeing the number of stepms, if hstepm=1 the length of hstepm is stepm. - nhstepm is the number of hstepm from age to agelim - nstepm is the number of stepm from age to agelin. - Look at function hpijx to understand why (it is linked to memory size questions) */ - /* We decided (b) to get a life expectancy respecting the most precise curvature of the - survival function given by stepm (the optimization length). Unfortunately it - means that if the survival funtion is printed every two years of age and if - you sum them up and add 1 year (area under the trapezoids) you won't get the same - results. So we changed our mind and took the option of the best precision. - */ - hstepm=hstepm/stepm; /* Typically in stepm units, if stepm=6 & estepm=24 , = 24/6 months = 4 */ + hstepm=1*YEARM; /* Every year of age */ + hstepm=hstepm/stepm; /* Typically in stepm units, if j= 2 years, = 2/6 months = 4 */ agelim = AGESUP; for (age=bage; age<=fage; age ++){ /* If stepm=6 months */ - nstepm=(int) rint((agelim-age)*YEARM/stepm); /* Typically 20 years = 20*12/6=40 */ - nhstepm = nstepm/hstepm;/* Expressed in hstepm, typically nhstepm=40/4=10 */ - p3mat=ma3x(1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); - gradg=ma3x(0,nhstepm,1,npar,1,nlstate); - gp=matrix(0,nhstepm,1,nlstate); - gm=matrix(0,nhstepm,1,nlstate); - + nhstepm=(int) rint((agelim-age)*YEARM/stepm); /* Typically 20 years = 20*12/6=40 */ + if (stepm >= YEARM) hstepm=1; + nhstepm = nhstepm/hstepm; /* Typically 40/4=10 */ + gradg=matrix(1,npar,1,nlstate); + mgp=matrix(1,npar,1,nlstate); + mgm=matrix(1,npar,1,nlstate); + gp=vector(1,nlstate); + gm=vector(1,nlstate); for(theta=1; theta <=npar; theta++){ - for(i=1; i<=npar; i++){ /* Computes gradient x + delta*/ + for(i=1; i<=npar; i++){ /* Computes gradient */ xp[i] = x[i] + (i==theta ?delti[theta]:0); } - hpxij(p3mat,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, ij); - prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ij); - - if (popbased==1) { - if(mobilav ==0){ - for(i=1; i<=nlstate;i++) - prlim[i][i]=probs[(int)age][i][ij]; - }else{ /* mobilav */ - for(i=1; i<=nlstate;i++) - prlim[i][i]=mobaverage[(int)age][i][ij]; - } - } - - for(j=1; j<= nlstate; j++){ - for(h=0; h<=nhstepm; h++){ - for(i=1, gp[h][j]=0.;i<=nlstate;i++) - gp[h][j] += prlim[i][i]*p3mat[i][j][h]; - } + /* if((int)age==79 ||(int)age== 80 ||(int)age== 81 ) */ + /* prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyearp,ij,nres); */ + /* else */ + prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyearp,ij,nres); + for(i=1;i<=nlstate;i++){ + gp[i] = prlim[i][i]; + mgp[theta][i] = prlim[i][i]; } - /* This for computing probability of death (h=1 means - computed over hstepm matrices product = hstepm*stepm months) - as a weighted average of prlim. - */ - for(j=nlstate+1;j<=nlstate+ndeath;j++){ - for(i=1,gpp[j]=0.; i<= nlstate; i++) - gpp[j] += prlim[i][i]*p3mat[i][j][1]; - } - /* end probability of death */ - - for(i=1; i<=npar; i++) /* Computes gradient x - delta */ + for(i=1; i<=npar; i++) /* Computes gradient */ xp[i] = x[i] - (i==theta ?delti[theta]:0); - hpxij(p3mat,nhstepm,age,hstepm,xp,nlstate,stepm,oldm,savm, ij); - prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ij); - - if (popbased==1) { - if(mobilav ==0){ - for(i=1; i<=nlstate;i++) - prlim[i][i]=probs[(int)age][i][ij]; - }else{ /* mobilav */ - for(i=1; i<=nlstate;i++) - prlim[i][i]=mobaverage[(int)age][i][ij]; - } - } - - for(j=1; j<= nlstate; j++){ /* Sum of wi * eij = e.j */ - for(h=0; h<=nhstepm; h++){ - for(i=1, gm[h][j]=0.;i<=nlstate;i++) - gm[h][j] += prlim[i][i]*p3mat[i][j][h]; - } - } - /* This for computing probability of death (h=1 means - computed over hstepm matrices product = hstepm*stepm months) - as a weighted average of prlim. - */ - for(j=nlstate+1;j<=nlstate+ndeath;j++){ - for(i=1,gmp[j]=0.; i<= nlstate; i++) - gmp[j] += prlim[i][i]*p3mat[i][j][1]; - } - /* end probability of death */ - - for(j=1; j<= nlstate; j++) /* vareij */ - for(h=0; h<=nhstepm; h++){ - gradg[h][theta][j]= (gp[h][j]-gm[h][j])/2./delti[theta]; - } - - for(j=nlstate+1; j<= nlstate+ndeath; j++){ /* var mu */ - gradgp[theta][j]= (gpp[j]-gmp[j])/2./delti[theta]; + /* if((int)age==79 ||(int)age== 80 ||(int)age== 81 ) */ + /* prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyearp,ij,nres); */ + /* else */ + prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ncvyearp,ij,nres); + for(i=1;i<=nlstate;i++){ + gm[i] = prlim[i][i]; + mgm[theta][i] = prlim[i][i]; } - + for(i=1;i<=nlstate;i++) + gradg[theta][i]= (gp[i]-gm[i])/2./delti[theta]; + /* gradg[theta][2]= -gradg[theta][1]; */ /* For testing if nlstate=2 */ } /* End theta */ - trgradg =ma3x(0,nhstepm,1,nlstate,1,npar); /* veij */ - - for(h=0; h<=nhstepm; h++) /* veij */ - for(j=1; j<=nlstate;j++) - for(theta=1; theta <=npar; theta++) - trgradg[h][j][theta]=gradg[h][theta][j]; + trgradg =matrix(1,nlstate,1,npar); - for(j=nlstate+1; j<=nlstate+ndeath;j++) /* mu */ + for(j=1; j<=nlstate;j++) for(theta=1; theta <=npar; theta++) - trgradgp[j][theta]=gradgp[theta][j]; - + trgradg[j][theta]=gradg[theta][j]; + /* if((int)age==79 ||(int)age== 80 ||(int)age== 81 ){ */ + /* printf("\nmgm mgp %d ",(int)age); */ + /* for(j=1; j<=nlstate;j++){ */ + /* printf(" %d ",j); */ + /* for(theta=1; theta <=npar; theta++) */ + /* printf(" %d %lf %lf",theta,mgm[theta][j],mgp[theta][j]); */ + /* printf("\n "); */ + /* } */ + /* } */ + /* if((int)age==79 ||(int)age== 80 ||(int)age== 81 ){ */ + /* printf("\n gradg %d ",(int)age); */ + /* for(j=1; j<=nlstate;j++){ */ + /* printf("%d ",j); */ + /* for(theta=1; theta <=npar; theta++) */ + /* printf("%d %lf ",theta,gradg[theta][j]); */ + /* printf("\n "); */ + /* } */ + /* } */ - hf=hstepm*stepm/YEARM; /* Duration of hstepm expressed in year unit. */ for(i=1;i<=nlstate;i++) - for(j=1;j<=nlstate;j++) - vareij[i][j][(int)age] =0.; + varpl[i][(int)age] =0.; + if((int)age==79 ||(int)age== 80 ||(int)age== 81){ + matprod2(dnewmpar,trgradg,1,nlstate,1,npar,1,npar,matcov); + matprod2(doldm,dnewmpar,1,nlstate,1,npar,1,nlstate,gradg); + }else{ + matprod2(dnewmpar,trgradg,1,nlstate,1,npar,1,npar,matcov); + matprod2(doldm,dnewmpar,1,nlstate,1,npar,1,nlstate,gradg); + } + for(i=1;i<=nlstate;i++) + varpl[i][(int)age] = doldm[i][i]; /* Covariances are useless */ - for(h=0;h<=nhstepm;h++){ - for(k=0;k<=nhstepm;k++){ - matprod2(dnewm,trgradg[h],1,nlstate,1,npar,1,npar,matcov); - matprod2(doldm,dnewm,1,nlstate,1,npar,1,nlstate,gradg[k]); - for(i=1;i<=nlstate;i++) - for(j=1;j<=nlstate;j++) - vareij[i][j][(int)age] += doldm[i][j]*hf*hf; - } - } - - /* pptj */ - matprod2(dnewmp,trgradgp,nlstate+1,nlstate+ndeath,1,npar,1,npar,matcov); - matprod2(doldmp,dnewmp,nlstate+1,nlstate+ndeath,1,npar,nlstate+1,nlstate+ndeath,gradgp); - for(j=nlstate+1;j<=nlstate+ndeath;j++) - for(i=nlstate+1;i<=nlstate+ndeath;i++) - varppt[j][i]=doldmp[j][i]; - /* end ppptj */ - /* x centered again */ - hpxij(p3mat,nhstepm,age,hstepm,x,nlstate,stepm,oldm,savm, ij); - prevalim(prlim,nlstate,x,age,oldm,savm,ftolpl,ij); - - if (popbased==1) { - if(mobilav ==0){ - for(i=1; i<=nlstate;i++) - prlim[i][i]=probs[(int)age][i][ij]; - }else{ /* mobilav */ - for(i=1; i<=nlstate;i++) - prlim[i][i]=mobaverage[(int)age][i][ij]; - } + fprintf(ficresvpl,"%.0f ",age ); + if(nresult >=1) + fprintf(ficresvpl,"%d ",nres ); + for(i=1; i<=nlstate;i++){ + fprintf(ficresvpl," %.5f (%.5f)",prlim[i][i],sqrt(varpl[i][(int)age])); + /* for(j=1;j<=nlstate;j++) */ + /* fprintf(ficresvpl," %d %.5f ",j,prlim[j][i]); */ } - - /* This for computing probability of death (h=1 means - computed over hstepm (estepm) matrices product = hstepm*stepm months) - as a weighted average of prlim. - */ - for(j=nlstate+1;j<=nlstate+ndeath;j++){ - for(i=1,gmp[j]=0.;i<= nlstate; i++) - gmp[j] += prlim[i][i]*p3mat[i][j][1]; - } - /* end probability of death */ - - fprintf(ficresprobmorprev,"%3d %d ",(int) age, ij); - for(j=nlstate+1; j<=(nlstate+ndeath);j++){ - fprintf(ficresprobmorprev," %11.3e %11.3e",gmp[j], sqrt(varppt[j][j])); - for(i=1; i<=nlstate;i++){ - fprintf(ficresprobmorprev," %11.3e %11.3e ",prlim[i][i],p3mat[i][j][1]); - } - } - fprintf(ficresprobmorprev,"\n"); - - fprintf(ficresvij,"%.0f ",age ); - for(i=1; i<=nlstate;i++) - for(j=1; j<=nlstate;j++){ - fprintf(ficresvij," %.4f", vareij[i][j][(int)age]); - } - fprintf(ficresvij,"\n"); - free_matrix(gp,0,nhstepm,1,nlstate); - free_matrix(gm,0,nhstepm,1,nlstate); - free_ma3x(gradg,0,nhstepm,1,npar,1,nlstate); - free_ma3x(trgradg,0,nhstepm,1,nlstate,1,npar); - free_ma3x(p3mat,1,nlstate+ndeath,1, nlstate+ndeath, 0,nhstepm); + fprintf(ficresvpl,"\n"); + free_vector(gp,1,nlstate); + free_vector(gm,1,nlstate); + free_matrix(mgm,1,npar,1,nlstate); + free_matrix(mgp,1,npar,1,nlstate); + free_matrix(gradg,1,npar,1,nlstate); + free_matrix(trgradg,1,nlstate,1,npar); } /* End age */ - free_vector(gpp,nlstate+1,nlstate+ndeath); - free_vector(gmp,nlstate+1,nlstate+ndeath); - free_matrix(gradgp,1,npar,nlstate+1,nlstate+ndeath); - free_matrix(trgradgp,nlstate+1,nlstate+ndeath,1,npar); /* mu or p point j*/ - fprintf(ficgp,"\nunset parametric;unset label; set ter png small size 320, 240"); - /* for(j=nlstate+1; j<= nlstate+ndeath; j++){ *//* Only the first actually */ - fprintf(ficgp,"\n set log y; unset log x;set xlabel \"Age\"; set ylabel \"Force of mortality (year-1)\";"); -/* fprintf(ficgp,"\n plot \"%s\" u 1:($3*%6.3f) not w l 1 ",fileresprobmorprev,YEARM/estepm); */ -/* fprintf(ficgp,"\n replot \"%s\" u 1:(($3+1.96*$4)*%6.3f) t \"95\%% interval\" w l 2 ",fileresprobmorprev,YEARM/estepm); */ -/* fprintf(ficgp,"\n replot \"%s\" u 1:(($3-1.96*$4)*%6.3f) not w l 2 ",fileresprobmorprev,YEARM/estepm); */ - fprintf(ficgp,"\n plot \"%s\" u 1:($3) not w l lt 1 ",subdirf(fileresprobmorprev)); - fprintf(ficgp,"\n replot \"%s\" u 1:(($3+1.96*$4)) t \"95\%% interval\" w l lt 2 ",subdirf(fileresprobmorprev)); - fprintf(ficgp,"\n replot \"%s\" u 1:(($3-1.96*$4)) not w l lt 2 ",subdirf(fileresprobmorprev)); - fprintf(fichtm,"\n
File (multiple files are possible if covariates are present): %s\n",subdirf(fileresprobmorprev),subdirf(fileresprobmorprev)); - fprintf(fichtm,"\n
Probability is computed over estepm=%d months.
![](\"%s%s.png\")
\n", estepm,subdirf3(optionfilefiname,"varmuptjgr",digitp),digit); - /* fprintf(fichtm,"\n
Probability is computed over estepm=%d months and then divided by estepm and multiplied by %.0f in order to have the probability to die over a year
![](\"varmuptjgr%s%s.png\")
\n", stepm,YEARM,digitp,digit); -*/ -/* fprintf(ficgp,"\nset out \"varmuptjgr%s%s%s.png\";replot;",digitp,optionfilefiname,digit); */ - fprintf(ficgp,"\nset out \"%s%s.png\";replot;\n",subdirf3(optionfilefiname,"varmuptjgr",digitp),digit); free_vector(xp,1,npar); - free_matrix(doldm,1,nlstate,1,nlstate); - free_matrix(dnewm,1,nlstate,1,npar); - free_matrix(doldmp,nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath); - free_matrix(dnewmp,nlstate+1,nlstate+ndeath,1,npar); - free_matrix(varppt,nlstate+1,nlstate+ndeath,nlstate+1,nlstate+ndeath); - if (mobilav!=0) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX); - fclose(ficresprobmorprev); - fflush(ficgp); - fflush(fichtm); -} /* end varevsij */ + free_matrix(doldm,1,nlstate,1,npar); + free_matrix(dnewmpar,1,nlstate,1,nlstate); -/************ Variance of prevlim ******************/ -void varprevlim(char fileres[], double **varpl, double **matcov, double x[], double delti[], int nlstate, int stepm, double bage, double fage, double **oldm, double **savm, double **prlim, double ftolpl, int ij, char strstart[]) +} + + +/************ Variance of backprevalence limit ******************/ + void varbrevlim(char fileresvbl[], FILE *ficresvbl, double **varbpl, double **matcov, double x[], double delti[], int nlstate, int stepm, double bage, double fage, double **oldm, double **savm, double **bprlim, double ftolpl, int mobilavproj, int *ncvyearp, int ij, char strstart[], int nres) { - /* Variance of prevalence limit */ + /* Variance of backward prevalence limit for each state ij using current parameters x[] and estimates of neighbourhood give by delti*/ /* double **prevalim(double **prlim, int nlstate, double *xp, double age, double **oldm, double **savm,double ftolpl);*/ - double **newm; - double **dnewm,**doldm; + + double **dnewmpar,**doldm; int i, j, nhstepm, hstepm; - int k, cptcode; double *xp; double *gp, *gm; double **gradg, **trgradg; + double **mgm, **mgp; double age,agelim; int theta; - pstamp(ficresvpl); - fprintf(ficresvpl,"# Standard deviation of period (stable) prevalences \n"); - fprintf(ficresvpl,"# Age"); + pstamp(ficresvbl); + fprintf(ficresvbl,"# Standard deviation of back (stable) prevalences \n"); + fprintf(ficresvbl,"# Age "); + if(nresult >=1) + fprintf(ficresvbl," Result# "); for(i=1; i<=nlstate;i++) - fprintf(ficresvpl," %1d-%1d",i,i); - fprintf(ficresvpl,"\n"); + fprintf(ficresvbl," %1d-%1d",i,i); + fprintf(ficresvbl,"\n"); xp=vector(1,npar); - dnewm=matrix(1,nlstate,1,npar); + dnewmpar=matrix(1,nlstate,1,npar); doldm=matrix(1,nlstate,1,nlstate); hstepm=1*YEARM; /* Every year of age */ hstepm=hstepm/stepm; /* Typically in stepm units, if j= 2 years, = 2/6 months = 4 */ - agelim = AGESUP; - for (age=bage; age<=fage; age ++){ /* If stepm=6 months */ - nhstepm=(int) rint((agelim-age)*YEARM/stepm); /* Typically 20 years = 20*12/6=40 */ + agelim = AGEINF; + for (age=fage; age>=bage; age --){ /* If stepm=6 months */ + nhstepm=(int) rint((age-agelim)*YEARM/stepm); /* Typically 20 years = 20*12/6=40 */ if (stepm >= YEARM) hstepm=1; nhstepm = nhstepm/hstepm; /* Typically 40/4=10 */ gradg=matrix(1,npar,1,nlstate); + mgp=matrix(1,npar,1,nlstate); + mgm=matrix(1,npar,1,nlstate); gp=vector(1,nlstate); gm=vector(1,nlstate); @@ -3447,18 +9078,27 @@ void varprevlim(char fileres[], double * for(i=1; i<=npar; i++){ /* Computes gradient */ xp[i] = x[i] + (i==theta ?delti[theta]:0); } - prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ij); - for(i=1;i<=nlstate;i++) - gp[i] = prlim[i][i]; - - for(i=1; i<=npar; i++) /* Computes gradient */ + if(mobilavproj > 0 ) + bprevalim(bprlim, mobaverage,nlstate,xp,age,ftolpl,ncvyearp,ij,nres); + else + bprevalim(bprlim, mobaverage,nlstate,xp,age,ftolpl,ncvyearp,ij,nres); + for(i=1;i<=nlstate;i++){ + gp[i] = bprlim[i][i]; + mgp[theta][i] = bprlim[i][i]; + } + for(i=1; i<=npar; i++) /* Computes gradient */ xp[i] = x[i] - (i==theta ?delti[theta]:0); - prevalim(prlim,nlstate,xp,age,oldm,savm,ftolpl,ij); - for(i=1;i<=nlstate;i++) - gm[i] = prlim[i][i]; - + if(mobilavproj > 0 ) + bprevalim(bprlim, mobaverage,nlstate,xp,age,ftolpl,ncvyearp,ij,nres); + else + bprevalim(bprlim, mobaverage,nlstate,xp,age,ftolpl,ncvyearp,ij,nres); + for(i=1;i<=nlstate;i++){ + gm[i] = bprlim[i][i]; + mgm[theta][i] = bprlim[i][i]; + } for(i=1;i<=nlstate;i++) gradg[theta][i]= (gp[i]-gm[i])/2./delti[theta]; + /* gradg[theta][2]= -gradg[theta][1]; */ /* For testing if nlstate=2 */ } /* End theta */ trgradg =matrix(1,nlstate,1,npar); @@ -3466,113 +9106,140 @@ void varprevlim(char fileres[], double * for(j=1; j<=nlstate;j++) for(theta=1; theta <=npar; theta++) trgradg[j][theta]=gradg[theta][j]; + /* if((int)age==79 ||(int)age== 80 ||(int)age== 81 ){ */ + /* printf("\nmgm mgp %d ",(int)age); */ + /* for(j=1; j<=nlstate;j++){ */ + /* printf(" %d ",j); */ + /* for(theta=1; theta <=npar; theta++) */ + /* printf(" %d %lf %lf",theta,mgm[theta][j],mgp[theta][j]); */ + /* printf("\n "); */ + /* } */ + /* } */ + /* if((int)age==79 ||(int)age== 80 ||(int)age== 81 ){ */ + /* printf("\n gradg %d ",(int)age); */ + /* for(j=1; j<=nlstate;j++){ */ + /* printf("%d ",j); */ + /* for(theta=1; theta <=npar; theta++) */ + /* printf("%d %lf ",theta,gradg[theta][j]); */ + /* printf("\n "); */ + /* } */ + /* } */ for(i=1;i<=nlstate;i++) - varpl[i][(int)age] =0.; - matprod2(dnewm,trgradg,1,nlstate,1,npar,1,npar,matcov); - matprod2(doldm,dnewm,1,nlstate,1,npar,1,nlstate,gradg); + varbpl[i][(int)age] =0.; + if((int)age==79 ||(int)age== 80 ||(int)age== 81){ + matprod2(dnewmpar,trgradg,1,nlstate,1,npar,1,npar,matcov); + matprod2(doldm,dnewmpar,1,nlstate,1,npar,1,nlstate,gradg); + }else{ + matprod2(dnewmpar,trgradg,1,nlstate,1,npar,1,npar,matcov); + matprod2(doldm,dnewmpar,1,nlstate,1,npar,1,nlstate,gradg); + } for(i=1;i<=nlstate;i++) - varpl[i][(int)age] = doldm[i][i]; /* Covariances are useless */ + varbpl[i][(int)age] = doldm[i][i]; /* Covariances are useless */ - fprintf(ficresvpl,"%.0f ",age ); + fprintf(ficresvbl,"%.0f ",age ); + if(nresult >=1) + fprintf(ficresvbl,"%d ",nres ); for(i=1; i<=nlstate;i++) - fprintf(ficresvpl," %.5f (%.5f)",prlim[i][i],sqrt(varpl[i][(int)age])); - fprintf(ficresvpl,"\n"); + fprintf(ficresvbl," %.5f (%.5f)",bprlim[i][i],sqrt(varbpl[i][(int)age])); + fprintf(ficresvbl,"\n"); free_vector(gp,1,nlstate); free_vector(gm,1,nlstate); + free_matrix(mgm,1,npar,1,nlstate); + free_matrix(mgp,1,npar,1,nlstate); free_matrix(gradg,1,npar,1,nlstate); free_matrix(trgradg,1,nlstate,1,npar); } /* End age */ free_vector(xp,1,npar); free_matrix(doldm,1,nlstate,1,npar); - free_matrix(dnewm,1,nlstate,1,nlstate); + free_matrix(dnewmpar,1,nlstate,1,nlstate); } /************ Variance of one-step probabilities ******************/ void varprob(char optionfilefiname[], double **matcov, double x[], double delti[], int nlstate, double bage, double fage, int ij, int *Tvar, int **nbcode, int *ncodemax, char strstart[]) -{ - int i, j=0, i1, k1, l1, t, tj; - int k2, l2, j1, z1; - int k=0,l, cptcode; - int first=1, first1, first2; - double cv12, mu1, mu2, lc1, lc2, v12, v21, v11, v22,v1,v2, c12, tnalp; - double **dnewm,**doldm; - double *xp; - double *gp, *gm; - double **gradg, **trgradg; - double **mu; - double age,agelim, cov[NCOVMAX+1]; - double std=2.0; /* Number of standard deviation wide of confidence ellipsoids */ - int theta; - char fileresprob[FILENAMELENGTH]; - char fileresprobcov[FILENAMELENGTH]; - char fileresprobcor[FILENAMELENGTH]; - double ***varpij; - - strcpy(fileresprob,"prob"); - strcat(fileresprob,fileres); - if((ficresprob=fopen(fileresprob,"w"))==NULL) { - printf("Problem with resultfile: %s\n", fileresprob); - fprintf(ficlog,"Problem with resultfile: %s\n", fileresprob); - } - strcpy(fileresprobcov,"probcov"); - strcat(fileresprobcov,fileres); - if((ficresprobcov=fopen(fileresprobcov,"w"))==NULL) { - printf("Problem with resultfile: %s\n", fileresprobcov); - fprintf(ficlog,"Problem with resultfile: %s\n", fileresprobcov); - } - strcpy(fileresprobcor,"probcor"); - strcat(fileresprobcor,fileres); - if((ficresprobcor=fopen(fileresprobcor,"w"))==NULL) { - printf("Problem with resultfile: %s\n", fileresprobcor); - fprintf(ficlog,"Problem with resultfile: %s\n", fileresprobcor); - } - printf("Computing standard deviation of one-step probabilities: result on file '%s' \n",fileresprob); - fprintf(ficlog,"Computing standard deviation of one-step probabilities: result on file '%s' \n",fileresprob); - printf("Computing matrix of variance covariance of one-step probabilities: result on file '%s' \n",fileresprobcov); - fprintf(ficlog,"Computing matrix of variance covariance of one-step probabilities: result on file '%s' \n",fileresprobcov); - printf("and correlation matrix of one-step probabilities: result on file '%s' \n",fileresprobcor); - fprintf(ficlog,"and correlation matrix of one-step probabilities: result on file '%s' \n",fileresprobcor); - pstamp(ficresprob); - fprintf(ficresprob,"#One-step probabilities and stand. devi in ()\n"); - fprintf(ficresprob,"# Age"); - pstamp(ficresprobcov); - fprintf(ficresprobcov,"#One-step probabilities and covariance matrix\n"); - fprintf(ficresprobcov,"# Age"); - pstamp(ficresprobcor); - fprintf(ficresprobcor,"#One-step probabilities and correlation matrix\n"); - fprintf(ficresprobcor,"# Age"); - - - for(i=1; i<=nlstate;i++) - for(j=1; j<=(nlstate+ndeath);j++){ - fprintf(ficresprob," p%1d-%1d (SE)",i,j); - fprintf(ficresprobcov," p%1d-%1d ",i,j); - fprintf(ficresprobcor," p%1d-%1d ",i,j); - } - /* fprintf(ficresprob,"\n"); - fprintf(ficresprobcov,"\n"); - fprintf(ficresprobcor,"\n"); - */ - xp=vector(1,npar); - dnewm=matrix(1,(nlstate)*(nlstate+ndeath),1,npar); - doldm=matrix(1,(nlstate)*(nlstate+ndeath),1,(nlstate)*(nlstate+ndeath)); - mu=matrix(1,(nlstate)*(nlstate+ndeath), (int) bage, (int)fage); - varpij=ma3x(1,nlstate*(nlstate+ndeath),1,nlstate*(nlstate+ndeath),(int) bage, (int) fage); - first=1; - fprintf(ficgp,"\n# Routine varprob"); - fprintf(fichtm,"\n
Computing and drawing one step probabilities with their confidence intervals
Matrix of variance-covariance of pairs of step probabilities (drawings)
Matrix of variance-covariance of pairs of step probabilities
\n\ - file %s\n",optionfilehtmcov); - fprintf(fichtmcov,"\nEllipsoids of confidence centered on point (p
Computing and drawing one step probabilities with their confidence intervals
Matrix of variance-covariance of one-step probabilities (drawings)
this page is important in order to visualize confidence intervals and especially correlation between disability and recovery, or more generally, way in and way back. File %s\n\n
Matrix of variance-covariance of pairs of step probabilities
\n",optionfilehtmcov, optionfilehtmcov); + fprintf(fichtmcov,"\nEllipsoids of confidence centered on point (p\n"); - fprintf(fichtmcov,"\n
Contour plot corresponding to x'cov-1x = 4 (where x is the column vector (pij,pkl)) are drawn. \ + fprintf(fichtmcov,"\n
Contour plot corresponding to x'cov-1x = 4 (where x is the column vector (pij,pkl)) are drawn. \ It can be understood this way: if pij and pkl where uncorrelated the (2x2) matrix of covariance \ would have been (1/(var pij), 0 , 0, 1/(var pkl)), and the confidence interval would be 2 \ standard deviations wide on each axis.
\ @@ -3580,389 +9247,702 @@ standard deviations wide on each axis. < and made the appropriate rotation to look at the uncorrelated principal directions.
\ To be simple, these graphs help to understand the significativity of each parameter in relation to a second other one.
\n"); - cov[1]=1; - /* tj=cptcoveff; */ - tj = (int) pow(2,cptcoveff); - if (cptcovn<1) {tj=1;ncodemax[1]=1;} - j1=0; - for(j1=1; j1<=tj;j1++){ - /*for(i1=1; i1<=ncodemax[t];i1++){ */ - /*j1++;*/ - if (cptcovn>0) { - fprintf(ficresprob, "\n#********** Variable "); - for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresprob, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]); - fprintf(ficresprob, "**********\n#\n"); - fprintf(ficresprobcov, "\n#********** Variable "); - for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresprobcov, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]); - fprintf(ficresprobcov, "**********\n#\n"); - - fprintf(ficgp, "\n#********** Variable "); - for (z1=1; z1<=cptcoveff; z1++) fprintf(ficgp, " V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]); - fprintf(ficgp, "**********\n#\n"); - - - fprintf(fichtmcov, "\n
********** Variable "); - for (z1=1; z1<=cptcoveff; z1++) fprintf(fichtm, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]); - fprintf(fichtmcov, "**********\n
"); - - fprintf(ficresprobcor, "\n#********** Variable "); - for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresprobcor, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtab[j1][z1]]); - fprintf(ficresprobcor, "**********\n#"); - } - - gradg=matrix(1,npar,1,(nlstate)*(nlstate+ndeath)); - trgradg=matrix(1,(nlstate)*(nlstate+ndeath),1,npar); - gp=vector(1,(nlstate)*(nlstate+ndeath)); - gm=vector(1,(nlstate)*(nlstate+ndeath)); - for (age=bage; age<=fage; age ++){ - cov[2]=age; - for (k=1; k<=cptcovn;k++) { - cov[2+k]=nbcode[Tvar[k]][codtab[j1][Tvar[k]]];/* j1 1 2 3 4 - * 1 1 1 1 1 - * 2 2 1 1 1 - * 3 1 2 1 1 - */ - /* nbcode[1][1]=0 nbcode[1][2]=1;*/ - } - for (k=1; k<=cptcovage;k++) cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2]; - for (k=1; k<=cptcovprod;k++) - cov[2+Tprod[k]]=nbcode[Tvard[k][1]][codtab[ij][Tvard[k][1]]]*nbcode[Tvard[k][2]][codtab[ij][Tvard[k][2]]]; - - - for(theta=1; theta <=npar; theta++){ - for(i=1; i<=npar; i++) - xp[i] = x[i] + (i==theta ?delti[theta]:(double)0); - - pmij(pmmij,cov,ncovmodel,xp,nlstate); - - k=0; - for(i=1; i<= (nlstate); i++){ - for(j=1; j<=(nlstate+ndeath);j++){ - k=k+1; - gp[k]=pmmij[i][j]; - } - } - - for(i=1; i<=npar; i++) - xp[i] = x[i] - (i==theta ?delti[theta]:(double)0); - - pmij(pmmij,cov,ncovmodel,xp,nlstate); - k=0; - for(i=1; i<=(nlstate); i++){ - for(j=1; j<=(nlstate+ndeath);j++){ - k=k+1; - gm[k]=pmmij[i][j]; - } - } - - for(i=1; i<= (nlstate)*(nlstate+ndeath); i++) - gradg[theta][i]=(gp[i]-gm[i])/(double)2./delti[theta]; - } - - for(j=1; j<=(nlstate)*(nlstate+ndeath);j++) - for(theta=1; theta <=npar; theta++) - trgradg[j][theta]=gradg[theta][j]; - - matprod2(dnewm,trgradg,1,(nlstate)*(nlstate+ndeath),1,npar,1,npar,matcov); - matprod2(doldm,dnewm,1,(nlstate)*(nlstate+ndeath),1,npar,1,(nlstate)*(nlstate+ndeath),gradg); - - pmij(pmmij,cov,ncovmodel,x,nlstate); - - k=0; - for(i=1; i<=(nlstate); i++){ - for(j=1; j<=(nlstate+ndeath);j++){ - k=k+1; - mu[k][(int) age]=pmmij[i][j]; - } - } - for(i=1;i<=(nlstate)*(nlstate+ndeath);i++) - for(j=1;j<=(nlstate)*(nlstate+ndeath);j++) - varpij[i][j][(int)age] = doldm[i][j]; - - /*printf("\n%d ",(int)age); - for (i=1; i<=(nlstate)*(nlstate+ndeath);i++){ - printf("%e [%e ;%e] ",gm[i],gm[i]-2*sqrt(doldm[i][i]),gm[i]+2*sqrt(doldm[i][i])); - fprintf(ficlog,"%e [%e ;%e] ",gm[i],gm[i]-2*sqrt(doldm[i][i]),gm[i]+2*sqrt(doldm[i][i])); - }*/ - - fprintf(ficresprob,"\n%d ",(int)age); - fprintf(ficresprobcov,"\n%d ",(int)age); - fprintf(ficresprobcor,"\n%d ",(int)age); - - for (i=1; i<=(nlstate)*(nlstate+ndeath);i++) - fprintf(ficresprob,"%11.3e (%11.3e) ",mu[i][(int) age],sqrt(varpij[i][i][(int)age])); - for (i=1; i<=(nlstate)*(nlstate+ndeath);i++){ - fprintf(ficresprobcov,"%11.3e ",mu[i][(int) age]); - fprintf(ficresprobcor,"%11.3e ",mu[i][(int) age]); - } - i=0; - for (k=1; k<=(nlstate);k++){ - for (l=1; l<=(nlstate+ndeath);l++){ - i++; - fprintf(ficresprobcov,"\n%d %d-%d",(int)age,k,l); - fprintf(ficresprobcor,"\n%d %d-%d",(int)age,k,l); - for (j=1; j<=i;j++){ - /* printf(" k=%d l=%d i=%d j=%d\n",k,l,i,j);fflush(stdout); */ - fprintf(ficresprobcov," %11.3e",varpij[i][j][(int)age]); - fprintf(ficresprobcor," %11.3e",varpij[i][j][(int) age]/sqrt(varpij[i][i][(int) age])/sqrt(varpij[j][j][(int)age])); - } - } - }/* end of loop for state */ - } /* end of loop for age */ - free_vector(gp,1,(nlstate+ndeath)*(nlstate+ndeath)); - free_vector(gm,1,(nlstate+ndeath)*(nlstate+ndeath)); - free_matrix(trgradg,1,(nlstate+ndeath)*(nlstate+ndeath),1,npar); - free_matrix(gradg,1,(nlstate+ndeath)*(nlstate+ndeath),1,npar); - - /* Confidence intervalle of pij */ - /* - fprintf(ficgp,"\nunset parametric;unset label"); - fprintf(ficgp,"\nset log y;unset log x; set xlabel \"Age\";set ylabel \"probability (year-1)\""); - fprintf(ficgp,"\nset ter png small\nset size 0.65,0.65"); - fprintf(fichtm,"\n
Probability with confidence intervals expressed in year-1 :pijgr%s.png, ",optionfilefiname,optionfilefiname); - fprintf(fichtm,"\n
![](\"pijgr%s.png\")
",optionfilefiname);
- fprintf(ficgp,"\nset out \"pijgr%s.png\"",optionfilefiname);
- fprintf(ficgp,"\nplot \"%s\" every :::%d::%d u 1:2 \"\%%lf",k1,k2,xfilevarprob);
- */
-
- /* Drawing ellipsoids of confidence of two variables p(k1-l1,k2-l2)*/
- first1=1;first2=2;
- for (k2=1; k2<=(nlstate);k2++){
- for (l2=1; l2<=(nlstate+ndeath);l2++){
- if(l2==k2) continue;
- j=(k2-1)*(nlstate+ndeath)+l2;
- for (k1=1; k1<=(nlstate);k1++){
- for (l1=1; l1<=(nlstate+ndeath);l1++){
- if(l1==k1) continue;
- i=(k1-1)*(nlstate+ndeath)+l1;
- if(i<=j) continue;
- for (age=bage; age<=fage; age ++){
- if ((int)age %5==0){
- v1=varpij[i][i][(int)age]/stepm*YEARM/stepm*YEARM;
- v2=varpij[j][j][(int)age]/stepm*YEARM/stepm*YEARM;
- cv12=varpij[i][j][(int)age]/stepm*YEARM/stepm*YEARM;
- mu1=mu[i][(int) age]/stepm*YEARM ;
- mu2=mu[j][(int) age]/stepm*YEARM;
- c12=cv12/sqrt(v1*v2);
- /* Computing eigen value of matrix of covariance */
- lc1=((v1+v2)+sqrt((v1+v2)*(v1+v2) - 4*(v1*v2-cv12*cv12)))/2.;
- lc2=((v1+v2)-sqrt((v1+v2)*(v1+v2) - 4*(v1*v2-cv12*cv12)))/2.;
- if ((lc2 <0) || (lc1 <0) ){
- if(first2==1){
- first1=0;
- printf("Strange: j1=%d One eigen value of 2x2 matrix of covariance is negative, lc1=%11.3e, lc2=%11.3e, v1=%11.3e, v2=%11.3e, cv12=%11.3e.\n It means that the matrix was not well estimated (varpij), for i=%2d, j=%2d, age=%4d .\n See files %s and %s. Probably WRONG RESULTS. See log file for details...\n", j1, lc1, lc2, v1, v2, cv12, i, j, (int)age,fileresprobcov, fileresprobcor);
- }
- fprintf(ficlog,"Strange: j1=%d One eigen value of 2x2 matrix of covariance is negative, lc1=%11.3e, lc2=%11.3e, v1=%11.3e, v2=%11.3e, cv12=%11.3e.\n It means that the matrix was not well estimated (varpij), for i=%2d, j=%2d, age=%4d .\n See files %s and %s. Probably WRONG RESULTS.\n", j1, lc1, lc2, v1, v2, cv12, i, j, (int)age,fileresprobcov, fileresprobcor);fflush(ficlog);
- /* lc1=fabs(lc1); */ /* If we want to have them positive */
- /* lc2=fabs(lc2); */
- }
+ cov[1]=1;
+ /* tj=cptcoveff; */
+ tj = (int) pow(2,cptcoveff);
+ if (cptcovn<1) {tj=1;ncodemax[1]=1;}
+ j1=0;
+
+ for(nres=1;nres <=nresult; nres++){ /* For each resultline */
+ for(j1=1; j1<=tj;j1++){ /* For any combination of dummy covariates, fixed and varying */
+ /* printf("Varprob TKresult[nres]=%d j1=%d, nres=%d, cptcovn=%d, cptcoveff=%d tj=%d cptcovs=%d\n", TKresult[nres], j1, nres, cptcovn, cptcoveff, tj, cptcovs); */
+ if(tj != 1 && TKresult[nres]!= j1)
+ continue;
+
+ /* for(j1=1; j1<=tj;j1++){ /\* For each valid combination of covariates or only once*\/ */
+ /* for(nres=1;nres <=1; nres++){ /\* For each resultline *\/ */
+ /* /\* for(nres=1;nres <=nresult; nres++){ /\\* For each resultline *\\/ *\/ */
+ if (cptcovn>0) {
+ fprintf(ficresprob, "\n#********** Variable ");
+ fprintf(ficresprobcov, "\n#********** Variable ");
+ fprintf(ficgp, "\n#********** Variable ");
+ fprintf(fichtmcov, "\n********** Variable "); + fprintf(ficresprobcor, "\n#********** Variable "); + + /* Including quantitative variables of the resultline to be done */ + for (z1=1; z1<=cptcovs; z1++){ /* Loop on each variable of this resultline */ + /* printf("Varprob modelresult[%d][%d]=%d model=1+age+%s \n",nres, z1, modelresult[nres][z1], model); */ + fprintf(ficlog,"Varprob modelresult[%d][%d]=%d model=1+age+%s \n",nres, z1, modelresult[nres][z1], model); + /* fprintf(ficlog,"Varprob modelresult[%d][%d]=%d model=1+age+%s resultline[%d]=%s \n",nres, z1, modelresult[nres][z1], model, nres, resultline[nres]); */ + if(Dummy[modelresult[nres][z1]]==0){/* Dummy variable of the variable in position modelresult in the model corresponding to z1 in resultline */ + if(Fixed[modelresult[nres][z1]]==0){ /* Fixed referenced to model equation */ + fprintf(ficresprob,"V%d=%d ",Tvresult[nres][z1],Tresult[nres][z1]); /* Output of each value for the combination TKresult[nres], ordere by the covariate values in the resultline */ + fprintf(ficresprobcov,"V%d=%d ",Tvresult[nres][z1],Tresult[nres][z1]); /* Output of each value for the combination TKresult[nres], ordere by the covariate values in the resultline */ + fprintf(ficgp,"V%d=%d ",Tvresult[nres][z1],Tresult[nres][z1]); /* Output of each value for the combination TKresult[nres], ordere by the covariate values in the resultline */ + fprintf(fichtmcov,"V%d=%d ",Tvresult[nres][z1],Tresult[nres][z1]); /* Output of each value for the combination TKresult[nres], ordere by the covariate values in the resultline */ + fprintf(ficresprobcor,"V%d=%d ",Tvresult[nres][z1],Tresult[nres][z1]); /* Output of each value for the combination TKresult[nres], ordere by the covariate values in the resultline */ + fprintf(ficresprob,"fixed "); + fprintf(ficresprobcov,"fixed "); + fprintf(ficgp,"fixed "); + fprintf(fichtmcov,"fixed "); + fprintf(ficresprobcor,"fixed "); + }else{ + fprintf(ficresprob,"varyi "); + fprintf(ficresprobcov,"varyi "); + fprintf(ficgp,"varyi "); + fprintf(fichtmcov,"varyi "); + fprintf(ficresprobcor,"varyi "); + } + }else if(Dummy[modelresult[nres][z1]]==1){ /* Quanti variable */ + /* For each selected (single) quantitative value */ + fprintf(ficresprob," V%d=%lg ",Tvqresult[nres][z1],Tqresult[nres][z1]); + if(Fixed[modelresult[nres][z1]]==0){ /* Fixed */ + fprintf(ficresprob,"fixed "); + fprintf(ficresprobcov,"fixed "); + fprintf(ficgp,"fixed "); + fprintf(fichtmcov,"fixed "); + fprintf(ficresprobcor,"fixed "); + }else{ + fprintf(ficresprob,"varyi "); + fprintf(ficresprobcov,"varyi "); + fprintf(ficgp,"varyi "); + fprintf(fichtmcov,"varyi "); + fprintf(ficresprobcor,"varyi "); + } + }else{ + printf("Error in varprob() Dummy[modelresult[%d][%d]]=%d, modelresult[%d][%d]=V%d cptcovs=%d, cptcoveff=%d \n", nres, z1, Dummy[modelresult[nres][z1]],nres,z1,modelresult[nres][z1],cptcovs, cptcoveff); /* end if dummy or quanti */ + fprintf(ficlog,"Error in varprob() Dummy[modelresult[%d][%d]]=%d, modelresult[%d][%d]=V%d cptcovs=%d, cptcoveff=%d \n", nres, z1, Dummy[modelresult[nres][z1]],nres,z1,modelresult[nres][z1],cptcovs, cptcoveff); /* end if dummy or quanti */ + exit(1); + } + } /* End loop on variable of this resultline */ + /* for (z1=1; z1<=cptcoveff; z1++) fprintf(ficresprob, "V%d=%d ",Tvaraff[z1],nbcode[Tvaraff[z1]][codtabm(j1,TnsdVar[Tvaraff[z1]])]); */ + fprintf(ficresprob, "**********\n#\n"); + fprintf(ficresprobcov, "**********\n#\n"); + fprintf(ficgp, "**********\n#\n"); + fprintf(fichtmcov, "**********\n
"); + fprintf(ficresprobcor, "**********\n#"); + if(invalidvarcomb[j1]){ + fprintf(ficgp,"\n#Combination (%d) ignored because no cases \n",j1); + fprintf(fichtmcov,"\n
Combination (%d) ignored because no cases
\n",j1); + continue; + } + } + gradg=matrix(1,npar,1,(nlstate)*(nlstate+ndeath)); + trgradg=matrix(1,(nlstate)*(nlstate+ndeath),1,npar); + gp=vector(1,(nlstate)*(nlstate+ndeath)); + gm=vector(1,(nlstate)*(nlstate+ndeath)); + for (age=bage; age<=fage; age ++){ /* Fo each age we feed the model equation with covariates, using precov as in hpxij() ? */ + cov[2]=age; + if(nagesqr==1) + cov[3]= age*age; + /* New code end of combination but for each resultline */ + for(k1=1;k1<=cptcovt;k1++){ /* loop on model equation (including products) */ + if(Typevar[k1]==1 || Typevar[k1] ==3){ /* A product with age */ + cov[2+nagesqr+k1]=precov[nres][k1]*cov[2]; + }else{ + cov[2+nagesqr+k1]=precov[nres][k1]; + } + }/* End of loop on model equation */ +/* Old code */ + /* /\* for (k=1; k<=cptcovn;k++) { *\/ */ + /* /\* cov[2+nagesqr+k]=nbcode[Tvar[k]][codtabm(j1,k)]; *\/ */ + /* for (k=1; k<=nsd;k++) { /\* For single dummy covariates only *\/ */ + /* /\* Here comes the value of the covariate 'j1' after renumbering k with single dummy covariates *\/ */ + /* cov[2+nagesqr+TvarsDind[k]]=nbcode[TvarsD[k]][codtabm(j1,TnsdVar[TvarsD[k]])]; */ + /* /\*cov[2+nagesqr+k]=nbcode[Tvar[k]][codtabm(j1,Tvar[k])];*\//\* j1 1 2 3 4 */ + /* * 1 1 1 1 1 */ + /* * 2 2 1 1 1 */ + /* * 3 1 2 1 1 */ + /* *\/ */ + /* /\* nbcode[1][1]=0 nbcode[1][2]=1;*\/ */ + /* } */ + /* /\* V2+V1+V4+V3*age Tvar[4]=3 ; V1+V2*age Tvar[2]=2; V1+V1*age Tvar[2]=1, Tage[1]=2 *\/ */ + /* /\* ) p nbcode[Tvar[Tage[k]]][(1 & (ij-1) >> (k-1))+1] *\/ */ + /* /\*for (k=1; k<=cptcovage;k++) cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2]; *\/ */ + /* for (k=1; k<=cptcovage;k++){ /\* For product with age *\/ */ + /* if(Dummy[Tage[k]]==2){ /\* dummy with age *\/ */ + /* cov[2+nagesqr+Tage[k]]=nbcode[Tvar[Tage[k]]][codtabm(j1,TnsdVar[Tvar[Tage[k]]])]*cov[2]; */ + /* /\* cov[++k1]=nbcode[Tvar[Tage[k]]][codtabm(ij,k)]*cov[2]; *\/ */ + /* } else if(Dummy[Tage[k]]==3){ /\* quantitative with age *\/ */ + /* printf("Internal IMaCh error, don't know which value for quantitative covariate with age, Tage[k]%d, k=%d, Tvar[Tage[k]]=V%d, age=%d\n",Tage[k],k ,Tvar[Tage[k]], (int)cov[2]); */ + /* /\* cov[2+nagesqr+Tage[k]]=meanq[k]/idq[k]*cov[2];/\\* Using the mean of quantitative variable Tvar[Tage[k]] /\\* Tqresult[nres][k]; *\\/ *\/ */ + /* /\* exit(1); *\/ */ + /* /\* cov[++k1]=Tqresult[nres][k]; *\/ */ + /* } */ + /* /\* cov[2+Tage[k]+nagesqr]=nbcode[Tvar[Tage[k]]][codtabm(ij,k)]*cov[2]; *\/ */ + /* } */ + /* for (k=1; k<=cptcovprod;k++){/\* For product without age *\/ */ + /* if(Dummy[Tvard[k][1]]==0){ */ + /* if(Dummy[Tvard[k][2]]==0){ */ + /* cov[2+nagesqr+Tprod[k]]=nbcode[Tvard[k][1]][codtabm(j1,TnsdVar[Tvard[k][1]])] * nbcode[Tvard[k][2]][codtabm(j1,TnsdVar[Tvard[k][2]])]; */ + /* /\* cov[++k1]=nbcode[Tvard[k][1]][codtabm(ij,k)] * nbcode[Tvard[k][2]][codtabm(ij,k)]; *\/ */ + /* }else{ /\* Should we use the mean of the quantitative variables? *\/ */ + /* cov[2+nagesqr+Tprod[k]]=nbcode[Tvard[k][1]][codtabm(j1,TnsdVar[Tvard[k][1]])] * Tqresult[nres][resultmodel[nres][k]]; */ + /* /\* cov[++k1]=nbcode[Tvard[k][1]][codtabm(ij,k)] * Tqresult[nres][k]; *\/ */ + /* } */ + /* }else{ */ + /* if(Dummy[Tvard[k][2]]==0){ */ + /* cov[2+nagesqr+Tprod[k]]=nbcode[Tvard[k][2]][codtabm(j1,TnsdVar[Tvard[k][2]])] * Tqinvresult[nres][TnsdVar[Tvard[k][1]]]; */ + /* /\* cov[++k1]=nbcode[Tvard[k][2]][codtabm(ij,k)] * Tqinvresult[nres][Tvard[k][1]]; *\/ */ + /* }else{ */ + /* cov[2+nagesqr+Tprod[k]]=Tqinvresult[nres][TnsdVar[Tvard[k][1]]]* Tqinvresult[nres][TnsdVar[Tvard[k][2]]]; */ + /* /\* cov[++k1]=Tqinvresult[nres][Tvard[k][1]]* Tqinvresult[nres][Tvard[k][2]]; *\/ */ + /* } */ + /* } */ + /* /\* cov[2+nagesqr+Tprod[k]]=nbcode[Tvard[k][1]][codtabm(ij,k)]*nbcode[Tvard[k][2]][codtabm(ij,k)]; *\/ */ + /* } */ +/* For each age and combination of dummy covariates we slightly move the parameters of delti in order to get the gradient*/ + for(theta=1; theta <=npar; theta++){ + for(i=1; i<=npar; i++) + xp[i] = x[i] + (i==theta ?delti[theta]:(double)0); + + pmij(pmmij,cov,ncovmodel,xp,nlstate); + + k=0; + for(i=1; i<= (nlstate); i++){ + for(j=1; j<=(nlstate+ndeath);j++){ + k=k+1; + gp[k]=pmmij[i][j]; + } + } + + for(i=1; i<=npar; i++) + xp[i] = x[i] - (i==theta ?delti[theta]:(double)0); + + pmij(pmmij,cov,ncovmodel,xp,nlstate); + k=0; + for(i=1; i<=(nlstate); i++){ + for(j=1; j<=(nlstate+ndeath);j++){ + k=k+1; + gm[k]=pmmij[i][j]; + } + } + + for(i=1; i<= (nlstate)*(nlstate+ndeath); i++) + gradg[theta][i]=(gp[i]-gm[i])/(double)2./delti[theta]; + } - /* Eigen vectors */ - v11=(1./sqrt(1+(v1-lc1)*(v1-lc1)/cv12/cv12)); - /*v21=sqrt(1.-v11*v11); *//* error */ - v21=(lc1-v1)/cv12*v11; - v12=-v21; - v22=v11; - tnalp=v21/v11; - if(first1==1){ - first1=0; - printf("%d %d%d-%d%d mu %.4e %.4e Var %.4e %.4e cor %.3f cov %.4e Eig %.3e %.3e 1stv %.3f %.3f tang %.3f\nOthers in log...\n",(int) age,k1,l1,k2,l2,mu1,mu2,v1,v2,c12,cv12,lc1,lc2,v11,v21,tnalp); - } - fprintf(ficlog,"%d %d%d-%d%d mu %.4e %.4e Var %.4e %.4e cor %.3f cov %.4e Eig %.3e %.3e 1stv %.3f %.3f tan %.3f\n",(int) age,k1,l1,k2,l2,mu1,mu2,v1,v2,c12,cv12,lc1,lc2,v11,v21,tnalp); - /*printf(fignu*/ - /* mu1+ v11*lc1*cost + v12*lc2*sin(t) */ - /* mu2+ v21*lc1*cost + v22*lc2*sin(t) */ - if(first==1){ - first=0; - fprintf(ficgp,"\nset parametric;unset label"); - fprintf(ficgp,"\nset log y;set log x; set xlabel \"p%1d%1d (year-1)\";set ylabel \"p%1d%1d (year-1)\"",k1,l1,k2,l2); - fprintf(ficgp,"\nset ter png small size 320, 240"); - fprintf(fichtmcov,"\nEllipsoids of confidence cov(p%1d%1d,p%1d%1d) expressed in year-1\ - :\ -%s%d%1d%1d-%1d%1d.png, ",k1,l1,k2,l2,\ - subdirf2(optionfilefiname,"varpijgr"), j1,k1,l1,k2,l2,\ - subdirf2(optionfilefiname,"varpijgr"), j1,k1,l1,k2,l2); - fprintf(fichtmcov,"\n
![](\"%s%d%1d%1d-%1d%1d.png\")
",subdirf2(optionfilefiname,"varpijgr"), j1,k1,l1,k2,l2);
- fprintf(fichtmcov,"\nCorrelation at age %d (%.3f),",(int) age, c12); - fprintf(ficgp,"\nset out \"%s%d%1d%1d-%1d%1d.png\"",subdirf2(optionfilefiname,"varpijgr"), j1,k1,l1,k2,l2); - fprintf(ficgp,"\nset label \"%d\" at %11.3e,%11.3e center",(int) age, mu1,mu2); - fprintf(ficgp,"\n# Age %d, p%1d%1d - p%1d%1d",(int) age, k1,l1,k2,l2); - fprintf(ficgp,"\nplot [-pi:pi] %11.3e+ %.3f*(%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)), %11.3e +%.3f*(%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)) not",\ - mu1,std,v11,sqrt(lc1),v12,sqrt(lc2),\ - mu2,std,v21,sqrt(lc1),v22,sqrt(lc2)); - }else{ - first=0; - fprintf(fichtmcov," %d (%.3f),",(int) age, c12); - fprintf(ficgp,"\n# Age %d, p%1d%1d - p%1d%1d",(int) age, k1,l1,k2,l2); - fprintf(ficgp,"\nset label \"%d\" at %11.3e,%11.3e center",(int) age, mu1,mu2); - fprintf(ficgp,"\nreplot %11.3e+ %.3f*(%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)), %11.3e +%.3f*(%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)) not",\ - mu1,std,v11,sqrt(lc1),v12,sqrt(lc2),\ - mu2,std,v21,sqrt(lc1),v22,sqrt(lc2)); - }/* if first */ - } /* age mod 5 */ - } /* end loop age */ - fprintf(ficgp,"\nset out \"%s%d%1d%1d-%1d%1d.png\";replot;",subdirf2(optionfilefiname,"varpijgr"), j1,k1,l1,k2,l2); - first=1; - } /*l12 */ - } /* k12 */ - } /*l1 */ - }/* k1 */ - /* } /* loop covariates */ - } - free_ma3x(varpij,1,nlstate,1,nlstate+ndeath,(int) bage, (int)fage); - free_matrix(mu,1,(nlstate+ndeath)*(nlstate+ndeath),(int) bage, (int)fage); - free_matrix(doldm,1,(nlstate)*(nlstate+ndeath),1,(nlstate)*(nlstate+ndeath)); - free_matrix(dnewm,1,(nlstate)*(nlstate+ndeath),1,npar); - free_vector(xp,1,npar); - fclose(ficresprob); - fclose(ficresprobcov); - fclose(ficresprobcor); - fflush(ficgp); - fflush(fichtmcov); -} + for(j=1; j<=(nlstate)*(nlstate+ndeath);j++) + for(theta=1; theta <=npar; theta++) + trgradg[j][theta]=gradg[theta][j]; + + matprod2(dnewm,trgradg,1,(nlstate)*(nlstate+ndeath),1,npar,1,npar,matcov); + matprod2(doldm,dnewm,1,(nlstate)*(nlstate+ndeath),1,npar,1,(nlstate)*(nlstate+ndeath),gradg); + + pmij(pmmij,cov,ncovmodel,x,nlstate); + + k=0; + for(i=1; i<=(nlstate); i++){ + for(j=1; j<=(nlstate+ndeath);j++){ + k=k+1; + mu[k][(int) age]=pmmij[i][j]; + } + } + for(i=1;i<=(nlstate)*(nlstate+ndeath);i++) + for(j=1;j<=(nlstate)*(nlstate+ndeath);j++) + varpij[i][j][(int)age] = doldm[i][j]; + + /*printf("\n%d ",(int)age); + for (i=1; i<=(nlstate)*(nlstate+ndeath);i++){ + printf("%e [%e ;%e] ",gm[i],gm[i]-2*sqrt(doldm[i][i]),gm[i]+2*sqrt(doldm[i][i])); + fprintf(ficlog,"%e [%e ;%e] ",gm[i],gm[i]-2*sqrt(doldm[i][i]),gm[i]+2*sqrt(doldm[i][i])); + }*/ + + fprintf(ficresprob,"\n%d ",(int)age); + fprintf(ficresprobcov,"\n%d ",(int)age); + fprintf(ficresprobcor,"\n%d ",(int)age); + + for (i=1; i<=(nlstate)*(nlstate+ndeath);i++) + fprintf(ficresprob,"%11.3e (%11.3e) ",mu[i][(int) age],sqrt(varpij[i][i][(int)age])); + for (i=1; i<=(nlstate)*(nlstate+ndeath);i++){ + fprintf(ficresprobcov,"%11.3e ",mu[i][(int) age]); + fprintf(ficresprobcor,"%11.3e ",mu[i][(int) age]); + } + i=0; + for (k=1; k<=(nlstate);k++){ + for (l=1; l<=(nlstate+ndeath);l++){ + i++; + fprintf(ficresprobcov,"\n%d %d-%d",(int)age,k,l); + fprintf(ficresprobcor,"\n%d %d-%d",(int)age,k,l); + for (j=1; j<=i;j++){ + /* printf(" k=%d l=%d i=%d j=%d\n",k,l,i,j);fflush(stdout); */ + fprintf(ficresprobcov," %11.3e",varpij[i][j][(int)age]); + fprintf(ficresprobcor," %11.3e",varpij[i][j][(int) age]/sqrt(varpij[i][i][(int) age])/sqrt(varpij[j][j][(int)age])); + } + } + }/* end of loop for state */ + } /* end of loop for age */ + free_vector(gp,1,(nlstate+ndeath)*(nlstate+ndeath)); + free_vector(gm,1,(nlstate+ndeath)*(nlstate+ndeath)); + free_matrix(trgradg,1,(nlstate+ndeath)*(nlstate+ndeath),1,npar); + free_matrix(gradg,1,(nlstate+ndeath)*(nlstate+ndeath),1,npar); + + /* Confidence intervalle of pij */ + /* + fprintf(ficgp,"\nunset parametric;unset label"); + fprintf(ficgp,"\nset log y;unset log x; set xlabel \"Age\";set ylabel \"probability (year-1)\""); + fprintf(ficgp,"\nset ter png small\nset size 0.65,0.65"); + fprintf(fichtm,"\n
Probability with confidence intervals expressed in year-1 :pijgr%s.png, ",optionfilefiname,optionfilefiname); + fprintf(fichtm,"\n
",optionfilefiname);
+ fprintf(ficgp,"\nset out \"pijgr%s.png\"",optionfilefiname);
+ fprintf(ficgp,"\nplot \"%s\" every :::%d::%d u 1:2 \"\%%lf",k1,k2,xfilevarprob);
+ */
+
+ /* Drawing ellipsoids of confidence of two variables p(k1-l1,k2-l2)*/
+ first1=1;first2=2;
+ for (k2=1; k2<=(nlstate);k2++){
+ for (l2=1; l2<=(nlstate+ndeath);l2++){
+ if(l2==k2) continue;
+ j=(k2-1)*(nlstate+ndeath)+l2;
+ for (k1=1; k1<=(nlstate);k1++){
+ for (l1=1; l1<=(nlstate+ndeath);l1++){
+ if(l1==k1) continue;
+ i=(k1-1)*(nlstate+ndeath)+l1;
+ if(i<=j) continue;
+ for (age=bage; age<=fage; age ++){
+ if ((int)age %5==0){
+ v1=varpij[i][i][(int)age]/stepm*YEARM/stepm*YEARM;
+ v2=varpij[j][j][(int)age]/stepm*YEARM/stepm*YEARM;
+ cv12=varpij[i][j][(int)age]/stepm*YEARM/stepm*YEARM;
+ mu1=mu[i][(int) age]/stepm*YEARM ;
+ mu2=mu[j][(int) age]/stepm*YEARM;
+ c12=cv12/sqrt(v1*v2);
+ /* Computing eigen value of matrix of covariance */
+ lc1=((v1+v2)+sqrt((v1+v2)*(v1+v2) - 4*(v1*v2-cv12*cv12)))/2.;
+ lc2=((v1+v2)-sqrt((v1+v2)*(v1+v2) - 4*(v1*v2-cv12*cv12)))/2.;
+ if ((lc2 <0) || (lc1 <0) ){
+ if(first2==1){
+ first1=0;
+ printf("Strange: j1=%d One eigen value of 2x2 matrix of covariance is negative, lc1=%11.3e, lc2=%11.3e, v1=%11.3e, v2=%11.3e, cv12=%11.3e.\n It means that the matrix was not well estimated (varpij), for i=%2d, j=%2d, age=%4d .\n See files %s and %s. Probably WRONG RESULTS. See log file for details...\n", j1, lc1, lc2, v1, v2, cv12, i, j, (int)age,fileresprobcov, fileresprobcor);
+ }
+ fprintf(ficlog,"Strange: j1=%d One eigen value of 2x2 matrix of covariance is negative, lc1=%11.3e, lc2=%11.3e, v1=%11.3e, v2=%11.3e, cv12=%11.3e.\n It means that the matrix was not well estimated (varpij), for i=%2d, j=%2d, age=%4d .\n See files %s and %s. Probably WRONG RESULTS.\n", j1, lc1, lc2, v1, v2, cv12, i, j, (int)age,fileresprobcov, fileresprobcor);fflush(ficlog);
+ /* lc1=fabs(lc1); */ /* If we want to have them positive */
+ /* lc2=fabs(lc2); */
+ }
+
+ /* Eigen vectors */
+ if(1+(v1-lc1)*(v1-lc1)/cv12/cv12 <1.e-5){
+ printf(" Error sqrt of a negative number: %lf\n",1+(v1-lc1)*(v1-lc1)/cv12/cv12);
+ fprintf(ficlog," Error sqrt of a negative number: %lf\n",1+(v1-lc1)*(v1-lc1)/cv12/cv12);
+ v11=(1./sqrt(fabs(1+(v1-lc1)*(v1-lc1)/cv12/cv12)));
+ }else
+ v11=(1./sqrt(1+(v1-lc1)*(v1-lc1)/cv12/cv12));
+ /*v21=sqrt(1.-v11*v11); *//* error */
+ v21=(lc1-v1)/cv12*v11;
+ v12=-v21;
+ v22=v11;
+ tnalp=v21/v11;
+ if(first1==1){
+ first1=0;
+ printf("%d %d%d-%d%d mu %.4e %.4e Var %.4e %.4e cor %.3f cov %.4e Eig %.3e %.3e 1stv %.3f %.3f tang %.3f\nOthers in log...\n",(int) age,k1,l1,k2,l2,mu1,mu2,v1,v2,c12,cv12,lc1,lc2,v11,v21,tnalp);
+ }
+ fprintf(ficlog,"%d %d%d-%d%d mu %.4e %.4e Var %.4e %.4e cor %.3f cov %.4e Eig %.3e %.3e 1stv %.3f %.3f tan %.3f\n",(int) age,k1,l1,k2,l2,mu1,mu2,v1,v2,c12,cv12,lc1,lc2,v11,v21,tnalp);
+ /*printf(fignu*/
+ /* mu1+ v11*lc1*cost + v12*lc2*sin(t) */
+ /* mu2+ v21*lc1*cost + v22*lc2*sin(t) */
+ if(first==1){
+ first=0;
+ fprintf(ficgp,"\n# Ellipsoids of confidence\n#\n");
+ fprintf(ficgp,"\nset parametric;unset label");
+ fprintf(ficgp,"\nset log y;set log x; set xlabel \"p%1d%1d (year-1)\";set ylabel \"p%1d%1d (year-1)\"",k1,l1,k2,l2);
+ fprintf(ficgp,"\nset ter svg size 640, 480");
+ fprintf(fichtmcov,"\n
Ellipsoids of confidence cov(p%1d%1d,p%1d%1d) expressed in year-1\
+ : \
+%s_%d%1d%1d-%1d%1d.svg, ",k1,l1,k2,l2,\
+ subdirf2(optionfilefiname,"VARPIJGR_"), j1,k1,l1,k2,l2, \
+ subdirf2(optionfilefiname,"VARPIJGR_"), j1,k1,l1,k2,l2);
+ fprintf(fichtmcov,"\n![](\"%s_%d%1d%1d-%1d%1d.svg\")
",subdirf2(optionfilefiname,"VARPIJGR_"), j1,k1,l1,k2,l2);
+ fprintf(fichtmcov,"\n
Correlation at age %d (%.3f),",(int) age, c12);
+ fprintf(ficgp,"\nset out \"%s_%d%1d%1d-%1d%1d.svg\"",subdirf2(optionfilefiname,"VARPIJGR_"), j1,k1,l1,k2,l2);
+ fprintf(ficgp,"\nset label \"%d\" at %11.3e,%11.3e center",(int) age, mu1,mu2);
+ fprintf(ficgp,"\n# Age %d, p%1d%1d - p%1d%1d",(int) age, k1,l1,k2,l2);
+ fprintf(ficgp,"\nplot [-pi:pi] %11.3e+ %.3f*(%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)), %11.3e +%.3f*(%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)) not", \
+ mu1,std,v11,sqrt(fabs(lc1)),v12,sqrt(fabs(lc2)), \
+ mu2,std,v21,sqrt(fabs(lc1)),v22,sqrt(fabs(lc2))); /* For gnuplot only */
+ }else{
+ first=0;
+ fprintf(fichtmcov," %d (%.3f),",(int) age, c12);
+ fprintf(ficgp,"\n# Age %d, p%1d%1d - p%1d%1d",(int) age, k1,l1,k2,l2);
+ fprintf(ficgp,"\nset label \"%d\" at %11.3e,%11.3e center",(int) age, mu1,mu2);
+ fprintf(ficgp,"\nreplot %11.3e+ %.3f*(%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)), %11.3e +%.3f*(%11.3e*%11.3e*cos(t)+%11.3e*%11.3e*sin(t)) not", \
+ mu1,std,v11,sqrt(lc1),v12,sqrt(fabs(lc2)), \
+ mu2,std,v21,sqrt(lc1),v22,sqrt(fabs(lc2)));
+ }/* if first */
+ } /* age mod 5 */
+ } /* end loop age */
+ fprintf(ficgp,"\nset out;\nset out \"%s_%d%1d%1d-%1d%1d.svg\";replot;set out;",subdirf2(optionfilefiname,"VARPIJGR_"), j1,k1,l1,k2,l2);
+ first=1;
+ } /*l12 */
+ } /* k12 */
+ } /*l1 */
+ }/* k1 */
+ } /* loop on combination of covariates j1 */
+ } /* loop on nres */
+ free_ma3x(varpij,1,nlstate,1,nlstate+ndeath,(int) bage, (int)fage);
+ free_matrix(mu,1,(nlstate+ndeath)*(nlstate+ndeath),(int) bage, (int)fage);
+ free_matrix(doldm,1,(nlstate)*(nlstate+ndeath),1,(nlstate)*(nlstate+ndeath));
+ free_matrix(dnewm,1,(nlstate)*(nlstate+ndeath),1,npar);
+ free_vector(xp,1,npar);
+ fclose(ficresprob);
+ fclose(ficresprobcov);
+ fclose(ficresprobcor);
+ fflush(ficgp);
+ fflush(fichtmcov);
+ }
/******************* Printing html file ***********/
-void printinghtml(char fileres[], char title[], char datafile[], int firstpass, \
+void printinghtml(char fileresu[], char title[], char datafile[], int firstpass, \
int lastpass, int stepm, int weightopt, char model[],\
int imx,int jmin, int jmax, double jmeanint,char rfileres[],\
- int popforecast, int estepm ,\
- double jprev1, double mprev1,double anprev1, \
- double jprev2, double mprev2,double anprev2){
- int jj1, k1, i1, cpt;
-
+ int popforecast, int mobilav, int prevfcast, int mobilavproj, int prevbcast, int estepm , \
+ double jprev1, double mprev1,double anprev1, double dateprev1, double dateprojd, double dateback1, \
+ double jprev2, double mprev2,double anprev2, double dateprev2, double dateprojf, double dateback2){
+ int jj1, k1, cpt, nres;
+ /* In fact some results are already printed in fichtm which is open */
fprintf(fichtm,"
Result files (first order: no variance)
\n \ - - Observed prevalence in each state (during the period defined between %.lf/%.lf/%.lf and %.lf/%.lf/%.lf): %s
\n ", - jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,subdirf2(fileres,"p"),subdirf2(fileres,"p")); +/* fprintf(fichtm,"- model=1+age+%s\n \ */ +/*
Result files (first order: no variance)
\n"); + fprintf(fichtm,"- - Observed frequency between two states (during the period defined between %.lf/%.lf/%.lf and %.lf/%.lf/%.lf): %s (html file)
\n", + jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,subdirfext3(optionfilefiname,"PHTMFR_",".htm"),subdirfext3(optionfilefiname,"PHTMFR_",".htm")); + fprintf(fichtm," - - Observed prevalence (cross-sectional prevalence) in each state (during the period defined between %.lf/%.lf/%.lf and %.lf/%.lf/%.lf): %s (html file) ",
+ jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,subdirfext3(optionfilefiname,"PHTM_",".htm"),subdirfext3(optionfilefiname,"PHTM_",".htm"));
+ fprintf(fichtm,", %s (text file)
\n",subdirf2(fileresu,"P_"),subdirf2(fileresu,"P_")); fprintf(fichtm,"\ - Estimated transition probabilities over %d (stepm) months: %s
\n ", - stepm,subdirf2(fileres,"pij"),subdirf2(fileres,"pij")); + stepm,subdirf2(fileresu,"PIJ_"),subdirf2(fileresu,"PIJ_")); fprintf(fichtm,"\ - - Period (stable) prevalence in each health state: %s
\n", - subdirf2(fileres,"pl"),subdirf2(fileres,"pl")); + - Estimated back transition probabilities over %d (stepm) months: %s
\n ", + stepm,subdirf2(fileresu,"PIJB_"),subdirf2(fileresu,"PIJB_")); fprintf(fichtm,"\ - - (a) Life expectancies by health status at initial age, ei. (b) health expectancies by health status at initial age, eij . If one or more covariates are included, specific tables for each value of the covariate are output in sequences within the same file (estepm=%2d months): \ - %s
\n", - estepm,subdirf2(fileres,"e"),subdirf2(fileres,"e")); + - Period (forward) prevalence in each health state: %s
\n", + subdirf2(fileresu,"PL_"),subdirf2(fileresu,"PL_")); fprintf(fichtm,"\ - - Population projections by age and states: \ - %s
\n ", subdirf2(fileres,"f"),subdirf2(fileres,"f"));
+ - Backward prevalence in each health state: %s
\n", + subdirf2(fileresu,"PLB_"),subdirf2(fileresu,"PLB_")); + fprintf(fichtm,"\ + - (a) Life expectancies by health status at initial age, ei. (b) health expectancies by health status at initial age, eij . If one or more covariates are included, specific tables for each value of the covariate are output in sequences within the same file (estepm=%2d months): \ + %s
\n", + estepm,subdirf2(fileresu,"E_"),subdirf2(fileresu,"E_")); + if(prevfcast==1){ + fprintf(fichtm,"\ + - Prevalence projections by age and states: \ + %s
\n ", subdirf2(fileresu,"F_"),subdirf2(fileresu,"F_"));
+ }
+
+
+ m=pow(2,cptcoveff);
+ if (cptcovn < 1) {m=1;ncodemax[1]=1;}
+
+ fprintf(fichtm," \n- Graphs (first order)
- "); + + /* if(nqfveff+nqtveff 0) */ /* Test to be done */ + fprintf(fichtm,"************ Results for covariates"); + for (cpt=1; cpt<=cptcovs;cpt++){ + fprintf(fichtm," V%d=%lg ",Tvresult[nres][cpt],TinvDoQresult[nres][Tvresult[nres][cpt]]); + } + /* fprintf(fichtm,"************ Results for covariates"); */ + /* for (cpt=1; cpt<=cptcoveff;cpt++){ */ + /* fprintf(fichtm," V%d=%d ",Tvresult[nres][cpt],(int)Tresult[nres][cpt]); */ + /* } */ + /* for (k4=1; k4<= nsq; k4++){ /\* For each selected (single) quantitative value *\/ */ + /* fprintf(fichtm," V%d=%f ",Tvqresult[nres][k4],Tqresult[nres][k4]); */ + /* } */ + if(invalidvarcomb[k1]){ + fprintf(fichtm," Warning Combination (%d) ignored because no cases ",k1); + continue; + } + fprintf(fichtm," "); + } /* cptcovn >0 */ + } + fprintf(fichtm," \n
- Graphs
Result files (second order: variances)
\n\ - - Parameter file with estimated parameters and covariance matrix: %s
\n", rfileres,rfileres); + - Parameter file with estimated parameters and covariance matrix: %s
\ + - 95%% confidence intervals and Wald tests of the estimated parameters are in the log file if optimization has been done (mle != 0).
\ +But because parameters are usually highly correlated (a higher incidence of disability \ +and a higher incidence of recovery can give very close observed transition) it might \ +be very useful to look not only at linear confidence intervals estimated from the \ +variances but at the covariance matrix. And instead of looking at the estimated coefficients \ +(parameters) of the logistic regression, it might be more meaningful to visualize the \ +covariance matrix of the one-step probabilities. \ +See page 'Matrix of variance-covariance of one-step probabilities' below. \n", rfileres,rfileres); - fprintf(fichtm," - Variance of one-step probabilities: %s
\n", - subdirf2(fileres,"prob"),subdirf2(fileres,"prob")); - fprintf(fichtm,"\ + fprintf(fichtm," - Standard deviation of one-step probabilities: %s
\n", + subdirf2(fileresu,"PROB_"),subdirf2(fileresu,"PROB_")); + fprintf(fichtm,"\ - Variance-covariance of one-step probabilities: %s
\n", - subdirf2(fileres,"probcov"),subdirf2(fileres,"probcov")); + subdirf2(fileresu,"PROBCOV_"),subdirf2(fileresu,"PROBCOV_")); - fprintf(fichtm,"\ + fprintf(fichtm,"\ - Correlation matrix of one-step probabilities: %s
\n", - subdirf2(fileres,"probcor"),subdirf2(fileres,"probcor")); - fprintf(fichtm,"\ + subdirf2(fileresu,"PROBCOR_"),subdirf2(fileresu,"PROBCOR_")); + fprintf(fichtm,"\ - Variances and covariances of health expectancies by age and initial health status (cov(eij,ekl)(estepm=%2d months): \ %s
\n ",
- estepm,subdirf2(fileres,"cve"),subdirf2(fileres,"cve"));
- fprintf(fichtm,"\
+ estepm,subdirf2(fileresu,"CVE_"),subdirf2(fileresu,"CVE_"));
+ fprintf(fichtm,"\
- (a) Health expectancies by health status at initial age (eij) and standard errors (in parentheses) (b) life expectancies and standard errors (ei.=ei1+ei2+...)(estepm=%2d months): \
%s - Graphs
- Graphs (second order)
- "); + + /* if(nqfveff+nqtveff 0) */ /* Test to be done */ + fprintf(fichtm,"************ Results for covariates"); + for (cpt=1; cpt<=cptcovs;cpt++){ + fprintf(fichtm," V%d=%lg ",Tvresult[nres][cpt],TinvDoQresult[nres][Tvresult[nres][cpt]]); + } + if(invalidvarcomb[k1]){ + fprintf(fichtm," Warning Combination (%d) ignored because no cases ",k1); + continue; + } + fprintf(fichtm," "); + } /* cptcovn >0 */ + } /* End nres */ + fprintf(fichtm," \n
"); + + jj1=0; + + fprintf(fichtm," \n
- ");
+ for(nres=1; nres <= nresult; nres++){ /* For each resultline */
+ /* k1=nres; */
+ k1=TKresult[nres];
+ if(TKresult[nres]==0)k1=1; /* To be checked for no result */
+ /* for(k1=1; k1<=m;k1++){ /\* For each combination of covariate *\/ */
+ /* if(m != 1 && TKresult[nres]!= k1) */
+ /* continue; */
+ jj1++;
+ if (cptcovn > 0) {
+ fprintf(fichtm,"\n
"); + jj1=0; - m=pow(2,cptcoveff); - if (cptcovn < 1) {m=1;ncodemax[1]=1;} + for(nres=1; nres <= nresult; nres++){ /* For each resultline */ + /* k1=nres; */ + k1=TKresult[nres]; + if(TKresult[nres]==0) k1=1; /* To be checked for noresult */ + /* for(k1=1; k1<=m;k1++){ /\* For each combination of covariate *\/ */ + /* if(m != 1 && TKresult[nres]!= k1) */ + /* continue; */ - jj1=0; - for(k1=1; k1<=m;k1++){ - for(i1=1; i1<=ncodemax[k1];i1++){ + /* for(i1=1; i1<=ncodemax[k1];i1++){ */ jj1++; if (cptcovn > 0) { + fprintf(fichtm,"\n
");
+
fprintf(fichtm,"
************ Results for covariates");
- for (cpt=1; cpt<=cptcoveff;cpt++)
- fprintf(fichtm," V%d=%d ",Tvaraff[cpt],nbcode[Tvaraff[cpt]][codtab[jj1][cpt]]);
- fprintf(fichtm," ************\n
");
+ for (cpt=1; cpt<=cptcovs;cpt++){
+ fprintf(fichtm," V%d=%lg ",Tvresult[nres][cpt],TinvDoQresult[nres][Tvresult[nres][cpt]]);
+ printf(" V%d=%lg ",Tvresult[nres][cpt],TinvDoQresult[nres][Tvresult[nres][cpt]]);
+ /* fprintf(fichtm," V%d=%d ",Tvaraff[cpt],nbcode[Tvaraff[cpt]][codtabm(jj1,cpt)]); */
+ /* printf(" V%d=%d ",Tvaraff[cpt],nbcode[Tvaraff[cpt]][codtabm(jj1,cpt)]);fflush(stdout); */
+ }
+ /* if(nqfveff+nqtveff 0) */ /* Test to be done */
+ fprintf(fichtm," (model=1+age+%s) ************\n
",model);
+ if(invalidvarcomb[k1]){
+ fprintf(fichtm,"\nCombination (%d) ignored because no cases
\n",k1);
+ printf("\nCombination (%d) ignored because no cases \n",k1);
+ continue;
+ }
}
+ /* aij, bij */
+ fprintf(fichtm,"
- Logit model (yours is: logit(pij)=log(pij/pii)= aij+ bij age+%s) as a function of age: %s_%d-1-%d.svg
\
+![](\"%s_%d-1-%d.svg\")
",model,subdirf2(optionfilefiname,"PE_"),k1,nres,subdirf2(optionfilefiname,"PE_"),k1,nres,subdirf2(optionfilefiname,"PE_"),k1,nres);
/* Pij */
- fprintf(fichtm,"
- Pij or Conditional probabilities to be observed in state j being in state i, %d (stepm) months before: %s%d_1.png
\
-![](\"%s%d_1.png\")
",stepm,subdirf2(optionfilefiname,"pe"),jj1,subdirf2(optionfilefiname,"pe"),jj1,subdirf2(optionfilefiname,"pe"),jj1);
+ fprintf(fichtm,"
\n- Pij or conditional probabilities to be observed in state j being in state i, %d (stepm) months before: %s_%d-2-%d.svg
\
+![](\"%s_%d-2-%d.svg\")
",stepm,subdirf2(optionfilefiname,"PE_"),k1,nres,subdirf2(optionfilefiname,"PE_"),k1,nres,subdirf2(optionfilefiname,"PE_"),k1,nres);
/* Quasi-incidences */
- fprintf(fichtm,"
- Pij or Conditional probabilities to be observed in state j being in state i %d (stepm) months\
- before but expressed in per year i.e. quasi incidences if stepm is small and probabilities too: %s%d_2.png
\
-![](\"%s%d_2.png\")
",stepm,subdirf2(optionfilefiname,"pe"),jj1,subdirf2(optionfilefiname,"pe"),jj1,subdirf2(optionfilefiname,"pe"),jj1);
- /* Period (stable) prevalence in each health state */
- for(cpt=1; cpt
\
-![](\"%s%d_%d.png\")
",subdirf2(optionfilefiname,"p"),cpt,jj1,subdirf2(optionfilefiname,"p"),cpt,jj1,subdirf2(optionfilefiname,"p"),cpt,jj1);
+ fprintf(fichtm,"
\n- Iij or Conditional probabilities to be observed in state j being in state i %d (stepm) months\
+ before but expressed in per year i.e. quasi incidences if stepm is small and probabilities too, \
+ incidence (rates) are the limit when h tends to zero of the ratio of the probability hPij \
+divided by h: hPij/h : %s_%d-3-%d.svg
\
+![](\"%s_%d-3-%d.svg\")
",stepm,subdirf2(optionfilefiname,"PE_"),k1,nres,subdirf2(optionfilefiname,"PE_"),k1,nres,subdirf2(optionfilefiname,"PE_"),k1,nres);
+ /* Survival functions (period) in state j */
+ for(cpt=1; cpt<=nlstate;cpt++){
+ fprintf(fichtm,"
\n- Survival functions in state %d. And probability to be observed in state %d being in state (1 to %d) at different ages. Mean times spent in state (or Life Expectancy or Health Expectancy etc.) are the areas under each curve. %s_%d-%d-%d.svg
", cpt, cpt, nlstate, subdirf2(optionfilefiname,"LIJ_"),cpt,k1,nres,subdirf2(optionfilefiname,"LIJ_"),cpt,k1,nres);
+ fprintf(fichtm," (data from text file %s.txt)\n
",subdirf2(optionfilefiname,"PIJ_"),subdirf2(optionfilefiname,"PIJ_"));
+ fprintf(fichtm,"![](\"%s_%d-%d-%d.svg\")
",subdirf2(optionfilefiname,"LIJ_"),cpt,k1,nres);
+ }
+ /* State specific survival functions (period) */
+ for(cpt=1; cpt<=nlstate;cpt++){
+ fprintf(fichtm,"
\n- Survival functions in state %d and in any other live state (total).\
+ And probability to be observed in various states (up to %d) being in state %d at different ages. Mean times spent in state (or Life Expectancy or Health Expectancy etc.) are the areas under each curve. \
+ %s_%d-%d-%d.svg
", cpt, nlstate, cpt, subdirf2(optionfilefiname,"LIJT_"),cpt,k1,nres,subdirf2(optionfilefiname,"LIJT_"),cpt,k1,nres);
+ fprintf(fichtm," (data from text file %s.txt)\n
",subdirf2(optionfilefiname,"PIJ_"),subdirf2(optionfilefiname,"PIJ_"));
+ fprintf(fichtm,"",subdirf2(optionfilefiname,"LIJT_"),cpt,k1,nres);
+ }
+ /* Period (forward stable) prevalence in each health state */
+ for(cpt=1; cpt<=nlstate;cpt++){
+ fprintf(fichtm,"
\n- Convergence to period (stable) prevalence in state %d. Or probability for a person being in state (1 to %d) at different ages, to be alive in state %d some years after. %s_%d-%d-%d.svg
", cpt, nlstate, cpt, subdirf2(optionfilefiname,"P_"),cpt,k1,nres,subdirf2(optionfilefiname,"P_"),cpt,k1,nres);
+ fprintf(fichtm," (data from text file %s.txt)\n
",subdirf2(optionfilefiname,"PIJ_"),subdirf2(optionfilefiname,"PIJ_"));
+ fprintf(fichtm,"" ,subdirf2(optionfilefiname,"P_"),cpt,k1,nres);
+ }
+ if(prevbcast==1){
+ /* Backward prevalence in each health state */
+ for(cpt=1; cpt<=nlstate;cpt++){
+ fprintf(fichtm,"
\n- Convergence to mixed (stable) back prevalence in state %d. Or probability for a person to be in state %d at a younger age, knowing that she/he was in state (1 to %d) at different older ages. %s_%d-%d-%d.svg
", cpt, cpt, nlstate, subdirf2(optionfilefiname,"PB_"),cpt,k1,nres,subdirf2(optionfilefiname,"PB_"),cpt,k1,nres);
+ fprintf(fichtm," (data from text file %s.txt)\n
",subdirf2(optionfilefiname,"PIJB_"),subdirf2(optionfilefiname,"PIJB_"));
+ fprintf(fichtm,"" ,subdirf2(optionfilefiname,"PB_"),cpt,k1,nres);
+ }
+ }
+ if(prevfcast==1){
+ /* Projection of prevalence up to period (forward stable) prevalence in each health state */
+ for(cpt=1; cpt<=nlstate;cpt++){
+ fprintf(fichtm,"
\n- Projection of cross-sectional prevalence (estimated with cases observed from %.1f to %.1f and mobil_average=%d), from year %.1f up to year %.1f tending to period (stable) forward prevalence in state %d. Or probability to be in state %d being in an observed weighted state (from 1 to %d). %s_%d-%d-%d.svg", dateprev1, dateprev2, mobilavproj, dateprojd, dateprojf, cpt, cpt, nlstate, subdirf2(optionfilefiname,"PROJ_"),cpt,k1,nres,subdirf2(optionfilefiname,"PROJ_"),cpt,k1,nres);
+ fprintf(fichtm," (data from text file %s.txt)\n
",subdirf2(optionfilefiname,"F_"),subdirf2(optionfilefiname,"F_"));
+ fprintf(fichtm,"",
+ subdirf2(optionfilefiname,"PROJ_"),cpt,k1,nres);
}
+ }
+ if(prevbcast==1){
+ /* Back projection of prevalence up to stable (mixed) back-prevalence in each health state */
+ for(cpt=1; cpt<=nlstate;cpt++){
+ fprintf(fichtm,"
\n- Back projection of cross-sectional prevalence (estimated with cases observed from %.1f to %.1f and mobil_average=%d), \
+ from year %.1f up to year %.1f (probably close to stable [mixed] back prevalence in state %d). Randomness in cross-sectional prevalence is not taken into \
+ account but can visually be appreciated. Or probability to have been in an state %d, knowing that the person was in either state (1 or %d) \
+with weights corresponding to observed prevalence at different ages. %s_%d-%d-%d.svg", dateprev1, dateprev2, mobilavproj, dateback1, dateback2, cpt, cpt, nlstate, subdirf2(optionfilefiname,"PROJB_"),cpt,k1,nres,subdirf2(optionfilefiname,"PROJB_"),cpt,k1,nres);
+ fprintf(fichtm," (data from text file %s.txt)\n
",subdirf2(optionfilefiname,"FB_"),subdirf2(optionfilefiname,"FB_"));
+ fprintf(fichtm," ", subdirf2(optionfilefiname,"PROJB_"),cpt,k1,nres);
+ }
+ }
+
for(cpt=1; cpt<=nlstate;cpt++) {
- fprintf(fichtm,"\n
- Life expectancy by health state (%d) at initial age and its decomposition into health expectancies : %s%d%d.png
\
-![](\"%s%d%d.png\")
",cpt,subdirf2(optionfilefiname,"exp"),cpt,jj1,subdirf2(optionfilefiname,"exp"),cpt,jj1,subdirf2(optionfilefiname,"exp"),cpt,jj1);
+ fprintf(fichtm,"\n
- Life expectancy by health state (%d) at initial age and its decomposition into health expectancies in each alive state (1 to %d) (or area under each survival functions): %s_%d-%d-%d.svg",cpt,nlstate,subdirf2(optionfilefiname,"EXP_"),cpt,k1,nres,subdirf2(optionfilefiname,"EXP_"),cpt,k1,nres);
+ fprintf(fichtm," (data from text file %s.txt)\n
",subdirf2(optionfilefiname,"E_"),subdirf2(optionfilefiname,"E_"));
+ fprintf(fichtm,"", subdirf2(optionfilefiname,"EXP_"),cpt,k1,nres );
}
- } /* end i1 */
- }/* End k1 */
- fprintf(fichtm,"
\n", - estepm,subdirf2(fileres,"stde"),subdirf2(fileres,"stde")); - fprintf(fichtm,"\ - - Variances and covariances of health expectancies by age. Status (i) based health expectancies (in state j), eij are weighted by the period prevalences in each state i (if popbased=1, an additional computation is done using the cross-sectional prevalences, i.e population based) (estepm=%d months): %s
\n", - estepm, subdirf2(fileres,"v"),subdirf2(fileres,"v")); - fprintf(fichtm,"\ + estepm,subdirf2(fileresu,"STDE_"),subdirf2(fileresu,"STDE_")); + fprintf(fichtm,"\ + - Variances and covariances of health expectancies by age. Status (i) based health expectancies (in state j), eij are weighted by the forward (period) prevalences in each state i (if popbased=1, an additional computation is done using the cross-sectional prevalences, i.e population based) (estepm=%d months): %s
\n", + estepm, subdirf2(fileresu,"V_"),subdirf2(fileresu,"V_")); + fprintf(fichtm,"\ - Total life expectancy and total health expectancies to be spent in each health state e.j with their standard errors (if popbased=1, an additional computation is done using the cross-sectional prevalences, i.e population based) (estepm=%d months): %s
\n", - estepm, subdirf2(fileres,"t"),subdirf2(fileres,"t")); - fprintf(fichtm,"\ - - Standard deviation of period (stable) prevalences: %s
\n",\ - subdirf2(fileres,"vpl"),subdirf2(fileres,"vpl")); + estepm, subdirf2(fileresu,"T_"),subdirf2(fileresu,"T_")); + fprintf(fichtm,"\ + - Standard deviation of forward (period) prevalences: %s
\n",\ + subdirf2(fileresu,"VPL_"),subdirf2(fileresu,"VPL_")); /* if(popforecast==1) fprintf(fichtm,"\n */ /* - Prevalences forecasting: f%s
\n */ /* - Population forecasting (if popforecast=1): pop%s
\n */ /*
",fileres,fileres,fileres,fileres); */ /* else */ -/* fprintf(fichtm,"\n No population forecast: popforecast = %d (instead of 1) or stepm = %d (instead of 1) or model=%s (instead of .)
\n",popforecast, stepm, model); */ - fflush(fichtm); - fprintf(fichtm,"
");
-
- m=pow(2,cptcoveff);
- if (cptcovn < 1) {m=1;ncodemax[1]=1;}
-
- jj1=0;
- for(k1=1; k1<=m;k1++){
- for(i1=1; i1<=ncodemax[k1];i1++){
+/* fprintf(fichtm,"\n No population forecast: popforecast = %d (instead of 1) or stepm = %d (instead of 1) or model=1+age+%s (instead of .)
\n",popforecast, stepm, model); */
+ fflush(fichtm);
+
+ m=pow(2,cptcoveff);
+ if (cptcovn < 1) {m=1;ncodemax[1]=1;}
+
+ fprintf(fichtm,"
"); + + jj1=0; + + fprintf(fichtm," \n
- ");
+ for(nres=1; nres <= nresult; nres++){ /* For each resultline */
+ /* k1=nres; */
+ k1=TKresult[nres];
+ /* for(k1=1; k1<=m;k1++){ /\* For each combination of covariate *\/ */
+ /* if(m != 1 && TKresult[nres]!= k1) */
+ /* continue; */
+ jj1++;
+ if (cptcovn > 0) {
+ fprintf(fichtm,"\n
");
+
fprintf(fichtm,"
************ Results for covariates");
- for (cpt=1; cpt<=cptcoveff;cpt++)
- fprintf(fichtm," V%d=%d ",Tvaraff[cpt],nbcode[Tvaraff[cpt]][codtab[jj1][cpt]]);
- fprintf(fichtm," ************\n
");
- }
+ for (cpt=1; cpt<=cptcovs;cpt++){ /**< cptcoveff number of variables */
+ fprintf(fichtm," V%d=%lg ",Tvresult[nres][cpt],TinvDoQresult[nres][Tvresult[nres][cpt]]);
+ printf(" V%d=%lg ",Tvresult[nres][cpt],TinvDoQresult[nres][Tvresult[nres][cpt]]);
+ /* fprintf(fichtm," V%d=%d ",Tvaraff[cpt],nbcode[Tvaraff[cpt]][codtabm(jj1,cpt)]); */
+ }
+
+ fprintf(fichtm," (model=1+age+%s) ************\n
",model);
+
+ if(invalidvarcomb[k1]){
+ fprintf(fichtm,"\nCombination (%d) ignored because no cases
\n",k1);
+ continue;
+ }
+ } /* If cptcovn >0 */
for(cpt=1; cpt<=nlstate;cpt++) {
- fprintf(fichtm,"
- Observed (cross-sectional) and period (incidence based) \
-prevalence (with 95%% confidence interval) in state (%d): %s%d_%d.png
\
-",cpt,subdirf2(optionfilefiname,"v"),cpt,jj1,subdirf2(optionfilefiname,"v"),cpt,jj1);
+ fprintf(fichtm,"\n
- Observed (cross-sectional with mov_average=%d) and period (incidence based) \
+prevalence (with 95%% confidence interval) in state (%d): %s_%d-%d-%d.svg",mobilav,cpt,subdirf2(optionfilefiname,"V_"),cpt,k1,nres,subdirf2(optionfilefiname,"V_"),cpt,k1,nres);
+ fprintf(fichtm," (data from text file %s)\n
",subdirf2(fileresu,"VPL_"),subdirf2(fileresu,"VPL_"));
+ fprintf(fichtm,"",subdirf2(optionfilefiname,"V_"), cpt,k1,nres);
}
fprintf(fichtm,"\n
- Total life expectancy by age and \
-health expectancies in states (1) and (2). If popbased=1 the smooth (due to the model) \
+health expectancies in each live state (1 to %d) with confidence intervals \
+on left y-scale as well as proportions of time spent in each live state \
+(with confidence intervals) on right y-scale 0 to 100%%.\
+ If popbased=1 the smooth (due to the model) \
true period expectancies (those weighted with period prevalences are also\
drawn in addition to the population based expectancies computed using\
- observed and cahotic prevalences: %s%d.png
\
-![](\"%s%d.png\")
",subdirf2(optionfilefiname,"e"),jj1,subdirf2(optionfilefiname,"e"),jj1);
- } /* end i1 */
- }/* End k1 */
- fprintf(fichtm,"
",subdirf2(optionfilefiname,"T_"),subdirf2(optionfilefiname,"T_")); + fprintf(fichtm,"
![](\"%s_%d-%d.svg\")
",subdirf2(optionfilefiname,"E_"),k1,nres);
+ /* } /\* end i1 *\/ */
+ }/* End nres */
+ fprintf(fichtm,"",p[1],p[2],agegomp); for (i=1;i<=2;i++) fprintf(fichtm," p[%d] = %lf [%f ; %f]
\n",i,p[i],p[i]-2*sqrt(matcov[i][i]),p[i]+2*sqrt(matcov[i][i])); - fprintf(fichtm,"
![](\"graphmort.png\")
");
+ fprintf(fichtm,"![](\"graphmort.svg\")
");
fprintf(fichtm,"Life table
\n
"); @@ -4713,11 +12328,11 @@ fprintf(fichtm,"Life table= firstobs) && (i <=lastobs))) { linei=linei+1; for(j=strlen(line); j>=0;j--){ /* Untabifies line */ @@ -4772,32 +12437,106 @@ int readdata(char datafile[], int firsto continue; } trimbb(linetmp,line); /* Trims multiple blanks in line */ - for (j=0; line[j]!='\0';j++){ - line[j]=linetmp[j]; - } - - + strcpy(line, linetmp); + + /* Loops on waves */ for (j=maxwav;j>=1;j--){ + for (iv=nqtv;iv>=1;iv--){ /* Loop on time varying quantitative variables */ + cutv(stra, strb, line, ' '); + if(strb[0]=='.') { /* Missing value */ + lval=-1; + cotqvar[j][iv][i]=-1; /* 0.0/0.0 */ + cotvar[j][ncovcol+nqv+ntv+iv][i]=-1; /* For performance reasons */ + if(isalpha(strb[1])) { /* .m or .d Really Missing value */ + printf("Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be the %d th quantitative value out of %d measured at wave %d. If missing, you should remove this individual or impute a value. Exiting.\n", strb, linei,i,line,iv, nqtv, j); + fprintf(ficlog,"Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be the %d th quantitative value out of %d measured at wave %d. If missing, you should remove this individual or impute a value. Exiting.\n", strb, linei,i,line,iv, nqtv, j);fflush(ficlog); + return 1; + } + }else{ + errno=0; + /* what_kind_of_number(strb); */ + dval=strtod(strb,&endptr); + /* if( strb[0]=='\0' || (*endptr != '\0')){ */ + /* if(strb != endptr && *endptr == '\0') */ + /* dval=dlval; */ + /* if (errno == ERANGE && (lval == LONG_MAX || lval == LONG_MIN)) */ + if( strb[0]=='\0' || (*endptr != '\0')){ + printf("Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be the %d th quantitative value out of %d measured at wave %d. Setting maxwav=%d might be wrong. Exiting.\n", strb, linei,i,line,iv, nqtv, j,maxwav); + fprintf(ficlog,"Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be the %d th quantitative value out of %d measured at wave %d. Setting maxwav=%d might be wrong. Exiting.\n", strb, linei,i,line, iv, nqtv, j,maxwav);fflush(ficlog); + return 1; + } + cotqvar[j][iv][i]=dval; + cotvar[j][ncovcol+nqv+ntv+iv][i]=dval; /* because cotvar starts now at first ntv */ + } + strcpy(line,stra); + }/* end loop ntqv */ + + for (iv=ntv;iv>=1;iv--){ /* Loop on time varying dummies */ + cutv(stra, strb, line, ' '); + if(strb[0]=='.') { /* Missing value */ + lval=-1; + }else{ + errno=0; + lval=strtol(strb,&endptr,10); + /* if (errno == ERANGE && (lval == LONG_MAX || lval == LONG_MIN))*/ + if( strb[0]=='\0' || (*endptr != '\0')){ + printf("Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be the %d th dummy covariate out of %d measured at wave %d. Setting maxwav=%d might be wrong. Exiting.\n", strb, linei,i,line,iv, ntv, j,maxwav); + fprintf(ficlog,"Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be the %d dummy covariate out of %d measured wave %d. Setting maxwav=%d might be wrong. Exiting.\n", strb, linei,i,line,iv, ntv,j,maxwav);fflush(ficlog); + return 1; + } + } + if(lval <-1 || lval >1){ + printf("Error reading data around '%ld' at line number %d for individual %d, '%s'\n \ + Should be a value of %d(nth) covariate of wave %d (0 should be the value for the reference and 1\n \ + for the alternative. IMaCh does not build design variables automatically, do it yourself.\n \ + For example, for multinomial values like 1, 2 and 3,\n \ + build V1=0 V2=0 for the reference value (1),\n \ + V1=1 V2=0 for (2) \n \ + and V1=0 V2=1 for (3). V1=1 V2=1 should not exist and the corresponding\n \ + output of IMaCh is often meaningless.\n \ + Exiting.\n",lval,linei, i,line,iv,j); + fprintf(ficlog,"Error reading data around '%ld' at line number %d for individual %d, '%s'\n \ + Should be a value of %d(nth) covariate of wave %d (0 should be the value for the reference and 1\n \ + for the alternative. IMaCh does not build design variables automatically, do it yourself.\n \ + For example, for multinomial values like 1, 2 and 3,\n \ + build V1=0 V2=0 for the reference value (1),\n \ + V1=1 V2=0 for (2) \n \ + and V1=0 V2=1 for (3). V1=1 V2=1 should not exist and the corresponding\n \ + output of IMaCh is often meaningless.\n \ + Exiting.\n",lval,linei, i,line,iv,j);fflush(ficlog); + return 1; + } + cotvar[j][ncovcol+nqv+iv][i]=(double)(lval); + strcpy(line,stra); + }/* end loop ntv */ + + /* Statuses at wave */ cutv(stra, strb, line, ' '); - if(strb[0]=='.') { /* Missing status */ + if(strb[0]=='.') { /* Missing value */ lval=-1; }else{ errno=0; lval=strtol(strb,&endptr,10); - /* if (errno == ERANGE && (lval == LONG_MAX || lval == LONG_MIN))*/ - if( strb[0]=='\0' || (*endptr != '\0')){ - printf("Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be a status of wave %d. Setting maxwav=%d might be wrong. Exiting.\n", strb, linei,i,line,j,maxwav); - fprintf(ficlog,"Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be a status of wave %d. Setting maxwav=%d might be wrong. Exiting.\n", strb, linei,i,line,j,maxwav);fflush(ficlog); + /* if (errno == ERANGE && (lval == LONG_MAX || lval == LONG_MIN))*/ + if( strb[0]=='\0' || (*endptr != '\0' )){ + printf("Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be a status of wave %d. Setting maxwav=%d might be wrong. Exiting.\n", strb, linei,i,line,j,maxwav); + fprintf(ficlog,"Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be a status of wave %d. Setting maxwav=%d might be wrong. Exiting.\n", strb, linei,i,line,j,maxwav);fflush(ficlog); + return 1; + }else if( lval==0 || lval > nlstate+ndeath){ + printf("Error in data around '%s' at line number %d for individual %d, '%s'\n Should be a state at wave %d. A state should be 1 to %d and not %ld.\n Fix your data file '%s'! Exiting.\n", strb, linei,i,line,j,nlstate+ndeath, lval, datafile);fflush(stdout); + fprintf(ficlog,"Error in data around '%s' at line number %d for individual %d, '%s'\n Should be a state at wave %d. A state should be 1 to %d and not %ld.\n Fix your data file '%s'! Exiting.\n", strb, linei,i,line,j,nlstate+ndeath, lval, datafile); fflush(ficlog); return 1; } } + s[j][i]=lval; + /* Date of Interview */ strcpy(line,stra); cutv(stra, strb,line,' '); - if(iout=sscanf(strb,"%d/%d",&month, &year) != 0){ + if( (iout=sscanf(strb,"%d/%d",&month, &year)) != 0){ } - else if(iout=sscanf(strb,"%s.",dummy) != 0){ + else if( (iout=sscanf(strb,"%s.",dummy)) != 0){ month=99; year=9999; }else{ @@ -4806,46 +12545,60 @@ int readdata(char datafile[], int firsto return 1; } anint[j][i]= (double) year; - mint[j][i]= (double)month; + mint[j][i]= (double)month; + /* if( (int)anint[j][i]+ (int)(mint[j][i])/12. < (int) (moisnais[i]/12.+annais[i])){ */ + /* printf("Warning reading data around '%s' at line number %d for individual %d, '%s'\nThe date of interview (%2d/%4d) at wave %d occurred before the date of birth (%2d/%4d).\n",strb, linei,i, line, mint[j][i],anint[j][i], moisnais[i],annais[i]); */ + /* fprintf(ficlog,"Warning reading data around '%s' at line number %d for individual %d, '%s'\nThe date of interview (%2d/%4d) at wave %d occurred before the date of birth (%2d/%4d).\n",strb, linei,i, line, mint[j][i],anint[j][i], moisnais[i],annais[i]); */ + /* } */ strcpy(line,stra); - } /* ENd Waves */ + } /* End loop on waves */ + /* Date of death */ cutv(stra, strb,line,' '); - if(iout=sscanf(strb,"%d/%d",&month, &year) != 0){ + if( (iout=sscanf(strb,"%d/%d",&month, &year)) != 0){ } - else if(iout=sscanf(strb,"%s.",dummy) != 0){ + else if( (iout=sscanf(strb,"%s.",dummy)) != 0){ month=99; year=9999; }else{ printf("Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be a date of death (mm/yyyy or .). Exiting.\n",strb, linei,i,line); - fprintf(ficlog,"Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be a date of death (mm/yyyy or .). Exiting.\n",strb, linei,i,line);fflush(ficlog); - return 1; + fprintf(ficlog,"Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be a date of death (mm/yyyy or .). Exiting.\n",strb, linei,i,line);fflush(ficlog); + return 1; } andc[i]=(double) year; moisdc[i]=(double) month; strcpy(line,stra); + /* Date of birth */ cutv(stra, strb,line,' '); - if(iout=sscanf(strb,"%d/%d",&month, &year) != 0){ + if( (iout=sscanf(strb,"%d/%d",&month, &year)) != 0){ } - else if(iout=sscanf(strb,"%s.", dummy) != 0){ + else if( (iout=sscanf(strb,"%s.", dummy)) != 0){ month=99; year=9999; }else{ printf("Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be a date of birth (mm/yyyy or .). Exiting.\n",strb, linei,i,line); fprintf(ficlog,"Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be a date of birth (mm/yyyy or .). Exiting.\n",strb, linei,i,line);fflush(ficlog); - return 1; + return 1; } if (year==9999) { printf("Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be a date of birth (mm/yyyy) but at least the year of birth should be given. Exiting.\n",strb, linei,i,line); fprintf(ficlog,"Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be a date of birth (mm/yyyy) but at least the year of birth should be given. Exiting.\n",strb, linei,i,line);fflush(ficlog); - return 1; - + return 1; + } annais[i]=(double)(year); - moisnais[i]=(double)(month); + moisnais[i]=(double)(month); + for (j=1;j<=maxwav;j++){ + if( (int)anint[j][i]+ (int)(mint[j][i])/12. < (int) (moisnais[i]/12.+annais[i])){ + printf("Warning reading data around '%s' at line number %d for individual %d, '%s'\nThe date of interview (%2d/%4d) at wave %d occurred before the date of birth (%2d/%4d).\n",strb, linei,i, line, (int)mint[j][i],(int)anint[j][i], j,(int)moisnais[i],(int)annais[i]); + fprintf(ficlog,"Warning reading data around '%s' at line number %d for individual %d, '%s'\nThe date of interview (%2d/%4d) at wave %d occurred before the date of birth (%2d/%4d).\n",strb, linei,i, line, (int)mint[j][i],(int)anint[j][i], j, (int)moisnais[i],(int)annais[i]); + } + } + strcpy(line,stra); + /* Sample weight */ cutv(stra, strb,line,' '); errno=0; dval=strtod(strb,&endptr); @@ -4858,9 +12611,34 @@ int readdata(char datafile[], int firsto weight[i]=dval; strcpy(line,stra); + for (iv=nqv;iv>=1;iv--){ /* Loop on fixed quantitative variables */ + cutv(stra, strb, line, ' '); + if(strb[0]=='.') { /* Missing value */ + lval=-1; + coqvar[iv][i]=NAN; + covar[ncovcol+iv][i]=NAN; /* including qvar in standard covar for performance reasons */ + }else{ + errno=0; + /* what_kind_of_number(strb); */ + dval=strtod(strb,&endptr); + /* if(strb != endptr && *endptr == '\0') */ + /* dval=dlval; */ + /* if (errno == ERANGE && (lval == LONG_MAX || lval == LONG_MIN)) */ + if( strb[0]=='\0' || (*endptr != '\0')){ + printf("Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be the %d th quantitative value (out of %d) constant for all waves. Setting maxwav=%d might be wrong. Exiting.\n", strb, linei,i,line, iv, nqv, maxwav); + fprintf(ficlog,"Error reading data around '%s' at line number %d for individual %d, '%s'\nShould be the %d th quantitative value (out of %d) constant for all waves. Setting maxwav=%d might be wrong. Exiting.\n", strb, linei,i,line, iv, nqv, maxwav);fflush(ficlog); + return 1; + } + coqvar[iv][i]=dval; + covar[ncovcol+iv][i]=dval; /* including qvar in standard covar for performance reasons */ + } + strcpy(line,stra); + }/* end loop nqv */ + + /* Covariate values */ for (j=ncovcol;j>=1;j--){ cutv(stra, strb,line,' '); - if(strb[0]=='.') { /* Missing status */ + if(strb[0]=='.') { /* Missing covariate value */ lval=-1; }else{ errno=0; @@ -4875,20 +12653,20 @@ int readdata(char datafile[], int firsto printf("Error reading data around '%ld' at line number %d for individual %d, '%s'\n \ Should be a value of %d(nth) covariate (0 should be the value for the reference and 1\n \ for the alternative. IMaCh does not build design variables automatically, do it yourself.\n \ - For example, for multinomial values like 1, 2 and 3,\n \ - build V1=0 V2=0 for the reference value (1),\n \ - V1=1 V2=0 for (2) \n \ + For example, for multinomial values like 1, 2 and 3,\n \ + build V1=0 V2=0 for the reference value (1),\n \ + V1=1 V2=0 for (2) \n \ and V1=0 V2=1 for (3). V1=1 V2=1 should not exist and the corresponding\n \ - output of IMaCh is often meaningless.\n \ + output of IMaCh is often meaningless.\n \ Exiting.\n",lval,linei, i,line,j); fprintf(ficlog,"Error reading data around '%ld' at line number %d for individual %d, '%s'\n \ Should be a value of %d(nth) covariate (0 should be the value for the reference and 1\n \ for the alternative. IMaCh does not build design variables automatically, do it yourself.\n \ - For example, for multinomial values like 1, 2 and 3,\n \ - build V1=0 V2=0 for the reference value (1),\n \ - V1=1 V2=0 for (2) \n \ + For example, for multinomial values like 1, 2 and 3,\n \ + build V1=0 V2=0 for the reference value (1),\n \ + V1=1 V2=0 for (2) \n \ and V1=0 V2=1 for (3). V1=1 V2=1 should not exist and the corresponding\n \ - output of IMaCh is often meaningless.\n \ + output of IMaCh is often meaningless.\n \ Exiting.\n",lval,linei, i,line,j);fflush(ficlog); return 1; } @@ -4896,7 +12674,7 @@ int readdata(char datafile[], int firsto strcpy(line,stra); } lstra=strlen(stra); - + if(lstra > 9){ /* More than 2**32 or max of what printf can write with %ld */ stratrunc = &(stra[lstra-9]); num[i]=atol(stratrunc); @@ -4908,217 +12686,1214 @@ int readdata(char datafile[], int firsto i=i+1; } /* End loop reading data */ - + *imax=i-1; /* Number of individuals */ fclose(fic); - + return (0); - endread: - printf("Exiting readdata: "); - fclose(fic); - return (1); - - + /* endread: */ + printf("Exiting readdata: "); + fclose(fic); + return (1); +} +void removefirstspace(char **stri){/*, char stro[]) {*/ + char *p1 = *stri, *p2 = *stri; + while (*p2 == ' ') + p2++; + /* while ((*p1++ = *p2++) !=0) */ + /* ; */ + /* do */ + /* while (*p2 == ' ') */ + /* p2++; */ + /* while (*p1++ == *p2++); */ + *stri=p2; } -void removespace(char *str) { - char *p1 = str, *p2 = str; - do - while (*p2 == ' ') - p2++; - while (*p1++ = *p2++); -} - -int decodemodel ( char model[], int lastobs) /**< This routine decode the model and returns: - * Model V1+V2+V3+V8+V7*V8+V5*V6+V8*age+V3*age - * - cptcovt total number of covariates of the model nbocc(+)+1 = 8 - * - cptcovn or number of covariates k of the models excluding age*products =6 - * - cptcovage number of covariates with age*products =2 - * - cptcovs number of simple covariates - * - Tvar[k] is the id of the kth covariate Tvar[1]@12 {1, 2, 3, 8, 10, 11, 8, 3, 7, 8, 5, 6}, thus Tvar[5=V7*V8]=10 - * which is a new column after the 9 (ncovcol) variables. - * - if k is a product Vn*Vm covar[k][i] is filled with correct values for each individual - * - Tprod[l] gives the kth covariates of the product Vn*Vm l=1 to cptcovprod-cptcovage - * Tprod[1]@2 {5, 6}: position of first product V7*V8 is 5, and second V5*V6 is 6. - * - Tvard[k] p Tvard[1][1]@4 {7, 8, 5, 6} for V7*V8 and V5*V6 . - */ + +int decoderesult( char resultline[], int nres) +/**< This routine decode one result line and returns the combination # of dummy covariates only **/ { - int i, j, k, ks; - int i1, j1, k1, k2; - char modelsav[80]; + int j=0, k=0, k1=0, k2=0, k3=0, k4=0, match=0, k2q=0, k3q=0, k4q=0; + char resultsav[MAXLINE]; + /* int resultmodel[MAXLINE]; */ + /* int modelresult[MAXLINE]; */ char stra[80], strb[80], strc[80], strd[80],stre[80]; + removefirstspace(&resultline); + printf("decoderesult:%s\n",resultline); + + strcpy(resultsav,resultline); + /* printf("Decoderesult resultsav=\"%s\" resultline=\"%s\"\n", resultsav, resultline); */ + if (strlen(resultsav) >1){ + j=nbocc(resultsav,'='); /**< j=Number of covariate values'=' in this resultline */ + } + if(j == 0 && cptcovs== 0){ /* Resultline but no = and no covariate in the model */ + TKresult[nres]=0; /* Combination for the nresult and the model */ + return (0); + } + if( j != cptcovs ){ /* Be careful if a variable is in a product but not single */ + fprintf(ficlog,"ERROR: the number of variables in the resultline which is %d, differs from the number %d of single variables used in the model line, 1+age+%s.\n",j, cptcovs, model);fflush(ficlog); + printf("ERROR: the number of variables in the resultline which is %d, differs from the number %d of single variables used in the model line, 1+age+%s.\n",j, cptcovs, model);fflush(stdout); + if(j==0) + return 1; + } + for(k=1; k<=j;k++){ /* Loop on any covariate of the RESULT LINE */ + if(nbocc(resultsav,'=') >1){ + cutl(stra,strb,resultsav,' '); /* keeps in strb after the first ' ' (stra is the rest of the resultline to be analyzed in the next loop *//* resultsav= "V4=1 V5=25.1 V3=0" stra= "V5=25.1 V3=0" strb= "V4=1" */ + /* If resultsav= "V4= 1 V5=25.1 V3=0" with a blank then strb="V4=" and stra="1 V5=25.1 V3=0" */ + cutl(strc,strd,strb,'='); /* strb:"V4=1" strc="1" strd="V4" */ + /* If a blank, then strc="V4=" and strd='\0' */ + if(strc[0]=='\0'){ + printf("Error in resultline, probably a blank after the \"%s\", \"result:%s\", stra=\"%s\" resultsav=\"%s\"\n",strb,resultline, stra, resultsav); + fprintf(ficlog,"Error in resultline, probably a blank after the \"V%s=\", resultline=%s\n",strb,resultline); + return 1; + } + }else + cutl(strc,strd,resultsav,'='); + Tvalsel[k]=atof(strc); /* 1 */ /* Tvalsel of k is the float value of the kth covariate appearing in this result line */ + + cutl(strc,stre,strd,'V'); /* strd='V4' strc=4 stre='V' */; + Tvarsel[k]=atoi(strc); /* 4 */ /* Tvarsel is the id of the kth covariate in the result line Tvarsel[1] in "V4=1.." is 4.*/ + /* Typevarsel[k]=1; /\* 1 for age product *\/ */ + /* cptcovsel++; */ + if (nbocc(stra,'=') >0) + strcpy(resultsav,stra); /* and analyzes it */ + } + /* Checking for missing or useless values in comparison of current model needs */ + /* Feeds resultmodel[nres][k1]=k2 for k1th product covariate with age in the model equation fed by the index k2 of the resutline*/ + for(k1=1; k1<= cptcovt ;k1++){ /* Loop on MODEL LINE V5+V4+V3+V4*V3+V5*age+V2+V1*V2+V1*age+V1 */ + if(Typevar[k1]==0){ /* Single covariate in model */ + /* 0 for simple covariate (dummy, quantitative, fixed or varying), 1 for age product, 2 for product */ + match=0; + for(k2=1; k2 <=j;k2++){/* Loop on resultline. In result line V4=1 V5=24.1 V3=1 V2=8 V1=0 */ + if(Tvar[k1]==Tvarsel[k2]) {/* Tvar is coming from the model, Tvarsel from the result. Tvar[1]=5 == Tvarsel[2]=5 */ + modelresult[nres][k2]=k1;/* modelresult[2]=1 modelresult[1]=2 modelresult[3]=3 modelresult[6]=4 modelresult[9]=5 */ + match=1; /* modelresult of k2 variable of resultline is identical to k1 variable of the model good */ + break; + } + } + if(match == 0){ + printf("Error in result line (Dummy single): V%d is missing in result: %s according to model=1+age+%s. Tvar[k1=%d]=%d is different from Tvarsel[k2=%d]=%d.\n",Tvar[k1], resultline, model,k1, Tvar[k1], k2, Tvarsel[k2]); + fprintf(ficlog,"Error in result line (Dummy single): V%d is missing in result: %s according to model=1+age+%s\n",Tvar[k1], resultline, model); + return 1; + } + }else if(Typevar[k1]==1){ /* Product with age We want to get the position k2 in the resultline of the product k1 in the model line*/ + /* We feed resultmodel[k1]=k2; */ + match=0; + for(k2=1; k2 <=j;k2++){/* Loop on resultline. jth occurence of = signs in the result line. In result line V4=1 V5=24.1 V3=1 V2=8 V1=0 */ + if(Tvar[k1]==Tvarsel[k2]) {/* Tvar is coming from the model, Tvarsel from the result. Tvar[1]=5 == Tvarsel[2]=5 */ + modelresult[nres][k2]=k1;/* we found a Vn=1 corrresponding to Vn*age in the model modelresult[2]=1 modelresult[1]=2 modelresult[3]=3 modelresult[6]=4 modelresult[9]=5 */ + resultmodel[nres][k1]=k2; /* Added here */ + /* printf("Decoderesult first modelresult[k2=%d]=%d (k1) V%d*AGE\n",k2,k1,Tvar[k1]); */ + match=1; /* modelresult of k2 variable of resultline is identical to k1 variable of the model good */ + break; + } + } + if(match == 0){ + printf("Error in result line (Product with age): V%d is missing in result: %s according to model=1+age+%s (Tvarsel[k2=%d]=%d)\n",Tvar[k1], resultline, model, k2, Tvarsel[k2]); + fprintf(ficlog,"Error in result line (Product with age): V%d is missing in result: %s according to model=1+age+%s (Tvarsel[k2=%d]=%d)\n",Tvar[k1], resultline, model, k2, Tvarsel[k2]); + return 1; + } + }else if(Typevar[k1]==2 || Typevar[k1]==3){ /* Product with or without age. We want to get the position in the resultline of the product in the model line*/ + /* resultmodel[nres][of such a Vn * Vm product k1] is not unique, so can't exist, we feed Tvard[k1][1] and [2] */ + match=0; + /* printf("Decoderesult very first Product Tvardk[k1=%d][1]=%d Tvardk[k1=%d][2]=%d V%d * V%d\n",k1,Tvardk[k1][1],k1,Tvardk[k1][2],Tvardk[k1][1],Tvardk[k1][2]); */ + for(k2=1; k2 <=j;k2++){/* Loop on resultline. In result line V4=1 V5=24.1 V3=1 V2=8 V1=0 */ + if(Tvardk[k1][1]==Tvarsel[k2]) {/* Tvardk is coming from the model, Tvarsel from the result. Tvar[1]=5 == Tvarsel[2]=5 */ + /* modelresult[k2]=k1; */ + /* printf("Decoderesult first Product modelresult[k2=%d]=%d (k1) V%d * \n",k2,k1,Tvarsel[k2]); */ + match=1; /* modelresult of k2 variable of resultline is identical to k1 variable of the model good */ + } + } + if(match == 0){ + printf("Error in result line (Product without age first variable or double product with age): V%d is missing in result: %s according to model=1+age+%s\n",Tvardk[k1][1], resultline, model); + fprintf(ficlog,"Error in result line (Product without age first variable or double product with age): V%d is missing in result: %s according to model=1+age+%s\n",Tvardk[k1][1], resultline, model); + return 1; + } + match=0; + for(k2=1; k2 <=j;k2++){/* Loop on resultline. In result line V4=1 V5=24.1 V3=1 V2=8 V1=0 */ + if(Tvardk[k1][2]==Tvarsel[k2]) {/* Tvardk is coming from the model, Tvarsel from the result. Tvar[1]=5 == Tvarsel[2]=5 */ + /* modelresult[k2]=k1;*/ + /* printf("Decoderesult second Product modelresult[k2=%d]=%d (k1) * V%d \n ",k2,k1,Tvarsel[k2]); */ + match=1; /* modelresult of k2 variable of resultline is identical to k1 variable of the model good */ + break; + } + } + if(match == 0){ + printf("Error in result line (Product without age second variable or double product with age): V%d is missing in result: %s according to model=1+age+%s\n",Tvardk[k1][2], resultline, model); + fprintf(ficlog,"Error in result line (Product without age second variable or double product with age): V%d is missing in result : %s according to model=1+age+%s\n",Tvardk[k1][2], resultline, model); + return 1; + } + }/* End of testing */ + }/* End loop cptcovt */ + /* Checking for missing or useless values in comparison of current model needs */ + /* Feeds resultmodel[nres][k1]=k2 for single covariate (k1) in the model equation */ + for(k2=1; k2 <=j;k2++){ /* j or cptcovs is the number of single covariates used either in the model line as well as in the result line (dummy or quantitative) + * Loop on resultline variables: result line V4=1 V5=24.1 V3=1 V2=8 V1=0 */ + match=0; + for(k1=1; k1<= cptcovt ;k1++){ /* loop on model: model line V5+V4+V3+V4*V3+V5*age+V2+V1*V2+V1*age+V1 */ + if(Typevar[k1]==0){ /* Single only */ + if(Tvar[k1]==Tvarsel[k2]) { /* Tvar[2]=4 == Tvarsel[1]=4 What if a product? */ + resultmodel[nres][k1]=k2; /* k1th position in the model equation corresponds to k2th position in the result line. resultmodel[2]=1 resultmodel[1]=2 resultmodel[3]=3 resultmodel[6]=4 resultmodel[9]=5 */ + modelresult[nres][k2]=k1; /* k1th position in the model equation corresponds to k2th position in the result line. modelresult[1]=2 modelresult[2]=1 modelresult[3]=3 remodelresult[4]=6 modelresult[5]=9 */ + ++match; + } + } + } + if(match == 0){ + printf("Error in result line: variable V%d is missing in model; result: %s, model=1+age+%s\n",Tvarsel[k2], resultline, model); + fprintf(ficlog,"Error in result line: variable V%d is missing in model; result: %s, model=1+age+%s\n",Tvarsel[k2], resultline, model); + return 1; + }else if(match > 1){ + printf("Error in result line: %d doubled; result: %s, model=1+age+%s\n",k2, resultline, model); + fprintf(ficlog,"Error in result line: %d doubled; result: %s, model=1+age+%s\n",k2, resultline, model); + return 1; + } + } + /* cptcovres=j /\* Number of variables in the resultline is equal to cptcovs and thus useless *\/ */ + /* We need to deduce which combination number is chosen and save quantitative values */ + /* model line V5+V4+V3+V4*V3+V5*age+V2+V1*V2+V1*age+V1 */ + /* nres=1st result line: V4=1 V5=25.1 V3=0 V2=8 V1=1 */ + /* should correspond to the combination 6 of dummy: V4=1, V3=0, V1=1 => V4*2**(0) + V3*2**(1) + V1*2**(2) = 1*1 + 0*2 + 1*4 = 5 + (1offset) = 6*/ + /* nres=2nd result line: V4=1 V5=24.1 V3=1 V2=8 V1=0 */ + /* should give a combination of dummy V4=1, V3=1, V1=0 => V4*2**(0) + V3*2**(1) + V1*2**(2) = 3 + (1offset) = 4*/ + /* 1 0 0 0 */ + /* 2 1 0 0 */ + /* 3 0 1 0 */ + /* 4 1 1 0 */ /* V4=1, V3=1, V1=0 (nres=2)*/ + /* 5 0 0 1 */ + /* 6 1 0 1 */ /* V4=1, V3=0, V1=1 (nres=1)*/ + /* 7 0 1 1 */ + /* 8 1 1 1 */ + /* V(Tvresult)=Tresult V4=1 V3=0 V1=1 Tresult[nres=1][2]=0 */ + /* V(Tvqresult)=Tqresult V5=25.1 V2=8 Tqresult[nres=1][1]=25.1 */ + /* V5*age V5 known which value for nres? */ + /* Tqinvresult[2]=8 Tqinvresult[1]=25.1 */ + for(k1=1, k=0, k4=0, k4q=0; k1 <=cptcovt;k1++){ /* cptcovt number of covariates (excluding 1 and age or age*age) in the MODEL equation. + * loop on position k1 in the MODEL LINE */ + /* k counting number of combination of single dummies in the equation model */ + /* k4 counting single dummies in the equation model */ + /* k4q counting single quantitatives in the equation model */ + if( Dummy[k1]==0 && Typevar[k1]==0 ){ /* Dummy and Single, fixed or timevarying, k1 is sorting according to MODEL, but k3 to resultline */ + /* k4+1= (not always if quant in model) position in the resultline V(Tvarsel)=Tvalsel=Tresult[nres][pos](value); V(Tvresult[nres][pos] (variable): V(variable)=value) */ + /* modelresult[k3]=k1: k3th position in the result line corresponds to the k1 position in the model line (doesn't work with products)*/ + /* Value in the (current nres) resultline of the variable at the k1th position in the model equation resultmodel[nres][k1]= k3 */ + /* resultmodel[nres][k1]=k3: k1th position in the model correspond to the k3 position in the resultline */ + /* k3 is the position in the nres result line of the k1th variable of the model equation */ + /* Tvarsel[k3]: Name of the variable at the k3th position in the result line. */ + /* Tvalsel[k3]: Value of the variable at the k3th position in the result line. */ + /* Tresult[nres][result_position]= value of the dummy variable at the result_position in the nres resultline */ + /* Tvresult[nres][result_position]= name of the dummy variable at the result_position in the nres resultline */ + /* Tinvresult[nres][Name of a dummy variable]= value of the variable in the result line */ + /* TinvDoQresult[nres][Name of a Dummy or Q variable]= value of the variable in the result line */ + k3= resultmodel[nres][k1]; /* From position k1 in model get position k3 in result line */ + /* nres=1 k1=2 resultmodel[2(V4)] = 1=k3 ; k1=3 resultmodel[3(V3)] = 2=k3*/ + k2=(int)Tvarsel[k3]; /* from position k3 in resultline get name k2: nres=1 k1=2=>k3=1 Tvarsel[resultmodel[2]]= Tvarsel[1] = 4=k2 (V4); k1=3=>k3=2 Tvarsel[2]=3 (V3)*/ + k+=Tvalsel[k3]*pow(2,k4); /* nres=1 k1=2 Tvalsel[1]=1 (V4=1); k1=3 k3=2 Tvalsel[2]=0 (V3=0) */ + TinvDoQresult[nres][(int)Tvarsel[k3]]=Tvalsel[k3]; /* TinvDoQresult[nres][Name]=Value; stores the value into the name of the variable. */ + /* Tinvresult[nres][4]=1 */ + /* Tresult[nres][k4+1]=Tvalsel[k3];/\* Tresult[nres=2][1]=1(V4=1) Tresult[nres=2][2]=0(V3=0) *\/ */ + Tresult[nres][k3]=Tvalsel[k3];/* Tresult[nres=2][1]=1(V4=1) Tresult[nres=2][2]=0(V3=0) */ + /* Tvresult[nres][k4+1]=(int)Tvarsel[k3];/\* Tvresult[nres][1]=4 Tvresult[nres][3]=1 *\/ */ + Tvresult[nres][k3]=(int)Tvarsel[k3];/* Tvresult[nres][1]=4 Tvresult[nres][3]=1 */ + Tinvresult[nres][(int)Tvarsel[k3]]=Tvalsel[k3]; /* Tinvresult[nres][4]=1 */ + precov[nres][k1]=Tvalsel[k3]; /* Value from resultline of the variable at the k1 position in the model */ + /* printf("Decoderesult Dummy k=%d, k1=%d precov[nres=%d][k1=%d]=%.f V(k2=V%d)= Tvalsel[%d]=%d, 2**(%d)\n",k, k1, nres, k1,precov[nres][k1], k2, k3, (int)Tvalsel[k3], k4); */ + k4++;; + }else if( Dummy[k1]==1 && Typevar[k1]==0 ){ /* Quantitative and single */ + /* Tqresult[nres][result_position]= value of the variable at the result_position in the nres resultline */ + /* Tvqresult[nres][result_position]= id of the variable at the result_position in the nres resultline */ + /* Tqinvresult[nres][Name of a quantitative variable]= value of the variable in the result line */ + k3q= resultmodel[nres][k1]; /* resultmodel[1(V5)] = 5 =k3q */ + k2q=(int)Tvarsel[k3q]; /* Name of variable at k3q th position in the resultline */ + /* Tvarsel[resultmodel[1]]= Tvarsel[1] = 4=k2 */ + /* Tqresult[nres][k4q+1]=Tvalsel[k3q]; /\* Tqresult[nres][1]=25.1 *\/ */ + /* Tvresult[nres][k4q+1]=(int)Tvarsel[k3q];/\* Tvresult[nres][1]=4 Tvresult[nres][3]=1 *\/ */ + /* Tvqresult[nres][k4q+1]=(int)Tvarsel[k3q]; /\* Tvqresult[nres][1]=5 *\/ */ + Tqresult[nres][k3q]=Tvalsel[k3q]; /* Tqresult[nres][1]=25.1 */ + Tvresult[nres][k3q]=(int)Tvarsel[k3q];/* Tvresult[nres][1]=4 Tvresult[nres][3]=1 */ + Tvqresult[nres][k3q]=(int)Tvarsel[k3q]; /* Tvqresult[nres][1]=5 */ + Tqinvresult[nres][(int)Tvarsel[k3q]]=Tvalsel[k3q]; /* Tqinvresult[nres][5]=25.1 */ + TinvDoQresult[nres][(int)Tvarsel[k3q]]=Tvalsel[k3q]; /* Tqinvresult[nres][5]=25.1 */ + precov[nres][k1]=Tvalsel[k3q]; + /* printf("Decoderesult Quantitative nres=%d,precov[nres=%d][k1=%d]=%.f V(k2q=V%d)= Tvalsel[%d]=%d, Tvarsel[%d]=%f\n",nres, nres, k1,precov[nres][k1], k2q, k3q, Tvarsel[k3q], k3q, Tvalsel[k3q]); */ + k4q++;; + }else if( Dummy[k1]==2 ){ /* For dummy with age product "V2+V3+V4+V6+V7+V6*V2+V7*V2+V6*V3+V7*V3+V6*V4+V7*V4+age*V2+age*V3+age*V4+age*V6+age*V7+age*V6*V2+age*V6*V3+age*V7*V3+age*V6*V4+age*V7*V4\r"*/ + /* Tvar[k1]; */ /* Age variable */ /* 17 age*V6*V2 ?*/ + /* Wrong we want the value of variable name Tvar[k1] */ + if(Typevar[k1]==2 || Typevar[k1]==3 ){ /* For product quant or dummy (with or without age) */ + precov[nres][k1]=TinvDoQresult[nres][Tvardk[k1][1]] * TinvDoQresult[nres][Tvardk[k1][2]]; + /* printf("Decoderesult Quantitative or Dummy (not with age) nres=%d k1=%d precov[nres=%d][k1=%d]=%.f V%d(=%.f) * V%d(=%.f) \n",nres, k1, nres, k1,precov[nres][k1], Tvardk[k1][1], TinvDoQresult[nres][Tvardk[k1][1]], Tvardk[k1][2], TinvDoQresult[nres][Tvardk[k1][2]]); */ + }else{ + k3= resultmodel[nres][k1]; /* nres=1 k1=2 resultmodel[2(V4)] = 1=k3 ; k1=3 resultmodel[3(V3)] = 2=k3*/ + k2=(int)Tvarsel[k3]; /* nres=1 k1=2=>k3=1 Tvarsel[resultmodel[2]]= Tvarsel[1] = 4=k2 (V4); k1=3=>k3=2 Tvarsel[2]=3 (V3)*/ + TinvDoQresult[nres][(int)Tvarsel[k3]]=Tvalsel[k3]; /* TinvDoQresult[nres][4]=1 */ + precov[nres][k1]=Tvalsel[k3]; + } + /* printf("Decoderesult Dummy with age k=%d, k1=%d precov[nres=%d][k1=%d]=%.f Tvar[%d]=V%d k2=Tvarsel[%d]=%d Tvalsel[%d]=%d\n",k, k1, nres, k1,precov[nres][k1], k1, Tvar[k1], k3,(int)Tvarsel[k3], k3, (int)Tvalsel[k3]); */ + }else if( Dummy[k1]==3 ){ /* For quant with age product */ + if(Typevar[k1]==2 || Typevar[k1]==3 ){ /* For product quant or dummy (with or without age) */ + precov[nres][k1]=TinvDoQresult[nres][Tvardk[k1][1]] * TinvDoQresult[nres][Tvardk[k1][2]]; + /* printf("Decoderesult Quantitative or Dummy (not with age) nres=%d k1=%d precov[nres=%d][k1=%d]=%.f V%d(=%.f) * V%d(=%.f) \n",nres, k1, nres, k1,precov[nres][k1], Tvardk[k1][1], TinvDoQresult[nres][Tvardk[k1][1]], Tvardk[k1][2], TinvDoQresult[nres][Tvardk[k1][2]]); */ + }else{ + k3q= resultmodel[nres][k1]; /* resultmodel[1(V5)] = 25.1=k3q */ + k2q=(int)Tvarsel[k3q]; /* Tvarsel[resultmodel[1]]= Tvarsel[1] = 4=k2 */ + TinvDoQresult[nres][(int)Tvarsel[k3q]]=Tvalsel[k3q]; /* TinvDoQresult[nres][5]=25.1 */ + precov[nres][k1]=Tvalsel[k3q]; + } + /* printf("Decoderesult Quantitative with age nres=%d, k1=%d, precov[nres=%d][k1=%d]=%f Tvar[%d]=V%d V(k2q=%d)= Tvarsel[%d]=%d, Tvalsel[%d]=%f\n",nres, k1, nres, k1,precov[nres][k1], k1, Tvar[k1], k2q, k3q, Tvarsel[k3q], k3q, Tvalsel[k3q]); */ + }else if(Typevar[k1]==2 || Typevar[k1]==3 ){ /* For product quant or dummy (with or without age) */ + precov[nres][k1]=TinvDoQresult[nres][Tvardk[k1][1]] * TinvDoQresult[nres][Tvardk[k1][2]]; + /* printf("Decoderesult Quantitative or Dummy (not with age) nres=%d k1=%d precov[nres=%d][k1=%d]=%.f V%d(=%.f) * V%d(=%.f) \n",nres, k1, nres, k1,precov[nres][k1], Tvardk[k1][1], TinvDoQresult[nres][Tvardk[k1][1]], Tvardk[k1][2], TinvDoQresult[nres][Tvardk[k1][2]]); */ + }else{ + printf("Error Decoderesult probably a product Dummy[%d]==%d && Typevar[%d]==%d\n", k1, Dummy[k1], k1, Typevar[k1]); + fprintf(ficlog,"Error Decoderesult probably a product Dummy[%d]==%d && Typevar[%d]==%d\n", k1, Dummy[k1], k1, Typevar[k1]); + } + } + + TKresult[nres]=++k; /* Number of combinations of dummies for the nresult and the model =Tvalsel[k3]*pow(2,k4) + 1*/ + return (0); +} + +int decodemodel( char model[], int lastobs) + /**< This routine decodes the model and returns: + * Model V1+V2+V3+V8+V7*V8+V5*V6+V8*age+V3*age+age*age + * - nagesqr = 1 if age*age in the model, otherwise 0. + * - cptcovt total number of covariates of the model nbocc(+)+1 = 8 excepting constant and age and age*age + * - cptcovn or number of covariates k of the models excluding age*products =6 and age*age + * - cptcovage number of covariates with age*products =2 + * - cptcovs number of simple covariates + * ncovcolt=ncovcol+nqv+ntv+nqtv total of covariates in the data, not in the model equation + * - Tvar[k] is the id of the kth covariate Tvar[1]@12 {1, 2, 3, 8, 10, 11, 8, 3, 7, 8, 5, 6}, thus Tvar[5=V7*V8]=10 + * which is a new column after the 9 (ncovcol+nqv+ntv+nqtv) variables. + * - if k is a product Vn*Vm, covar[k][i] is filled with correct values for each individual + * - Tprod[l] gives the kth covariates of the product Vn*Vm l=1 to cptcovprod-cptcovage + * Tprod[1]@2 {5, 6}: position of first product V7*V8 is 5, and second V5*V6 is 6. + * - Tvard[k] p Tvard[1][1]@4 {7, 8, 5, 6} for V7*V8 and V5*V6 . + */ +/* V2+V1+V4+V3*age Tvar[4]=3 ; V1+V2*age Tvar[2]=2; V1+V1*age Tvar[2]=1, Tage[1]=2 */ +{ + int i, j, k, ks;/* , v;*/ + int n,m; + int j1, k1, k11, k12, k2, k3, k4; + char modelsav[300]; + char stra[300], strb[300], strc[300], strd[300],stre[300],strf[300]; + char *strpt; + int **existcomb; + + existcomb=imatrix(1,NCOVMAX,1,NCOVMAX); + for(i=1;i<=NCOVMAX;i++) + for(j=1;j<=NCOVMAX;j++) + existcomb[i][j]=0; + /*removespace(model);*/ if (strlen(model) >1){ /* If there is at least 1 covariate */ - j=0, j1=0, k1=0, k2=-1, ks=0, cptcovn=0; - j=nbocc(model,'+'); /**< j=Number of '+' */ - j1=nbocc(model,'*'); /**< j1=Number of '*' */ - cptcovs=j+1-j1; /**< Number of simple covariates V1+V2*age+V3 +V3*V4=> V1 + V3 =2 */ - cptcovt= j+1; /* Number of total covariates in the model V1 + V2*age+ V3 + V3*V4=> 4*/ - /* including age products which are counted in cptcovage. - /* but the covariates which are products must be treated separately: ncovn=4- 2=2 (V1+V3). */ - cptcovprod=j1; /**< Number of products V1*V2 +v3*age = 2 */ - cptcovprodnoage=0; /**< Number of covariate products without age: V3*V4 =1 */ - strcpy(modelsav,model); + j=0, j1=0, k1=0, k12=0, k2=-1, ks=0, cptcovn=0; if (strstr(model,"AGE") !=0){ - printf("Error. AGE must be in lower case 'age' model=%s ",model); - fprintf(ficlog,"Error. AGE must be in lower case model=%s ",model);fflush(ficlog); + printf("Error. AGE must be in lower case 'age' model=1+age+%s. ",model); + fprintf(ficlog,"Error. AGE must be in lower case model=1+age+%s. ",model);fflush(ficlog); return 1; } if (strstr(model,"v") !=0){ - printf("Error. 'v' must be in upper case 'V' model=%s ",model); - fprintf(ficlog,"Error. 'v' must be in upper case model=%s ",model);fflush(ficlog); + printf("Error. 'v' must be in upper case 'V' model=1+age+%s ",model); + fprintf(ficlog,"Error. 'v' must be in upper case model=1+age+%s ",model);fflush(ficlog); return 1; } - - /* Design - * V1 V2 V3 V4 V5 V6 V7 V8 V9 Weight - * < ncovcol=8 > - * Model V2 + V1 + V3*age + V3 + V5*V6 + V7*V8 + V8*age + V8 - * k= 1 2 3 4 5 6 7 8 - * cptcovn number of covariates (not including constant and age ) = # of + plus 1 = 7+1=8 - * covar[k,i], value of kth covariate if not including age for individual i: - * covar[1][i]= (V2), covar[4][i]=(V3), covar[8][i]=(V8) - * Tvar[k] # of the kth covariate: Tvar[1]=2 Tvar[4]=3 Tvar[8]=8 - * if multiplied by age: V3*age Tvar[3=V3*age]=3 (V3) Tvar[7]=8 and - * Tage[++cptcovage]=k - * if products, new covar are created after ncovcol with k1 - * Tvar[k]=ncovcol+k1; # of the kth covariate product: Tvar[5]=ncovcol+1=10 Tvar[6]=ncovcol+1=11 - * Tprod[k1]=k; Tprod[1]=5 Tprod[2]= 6; gives the position of the k1th product - * Tvard[k1][1]=m Tvard[k1][2]=m; Tvard[1][1]=5 (V5) Tvard[1][2]=6 Tvard[2][1]=7 (V7) Tvard[2][2]=8 - * Tvar[cptcovn+k2]=Tvard[k1][1];Tvar[cptcovn+k2+1]=Tvard[k1][2]; - * Tvar[8+1]=5;Tvar[8+2]=6;Tvar[8+3]=7;Tvar[8+4]=8 inverted - * V1 V2 V3 V4 V5 V6 V7 V8 V9 V10 V11 - * < ncovcol=8 > - * Model V2 + V1 + V3*age + V3 + V5*V6 + V7*V8 + V8*age + V8 d1 d1 d2 d2 - * k= 1 2 3 4 5 6 7 8 9 10 11 12 - * Tvar[k]= 2 1 3 3 10 11 8 8 5 6 7 8 - * p Tvar[1]@12={2, 1, 3, 3, 11, 10, 8, 8, 7, 8, 5, 6} - * p Tprod[1]@2={ 6, 5} - *p Tvard[1][1]@4= {7, 8, 5, 6} - * covar[k][i]= V2 V1 ? V3 V5*V6? V7*V8? ? V8 - * cov[Tage[kk]+2]=covar[Tvar[Tage[kk]]][i]*cov[2]; - *How to reorganize? - * Model V1 + V2 + V3 + V8 + V5*V6 + V7*V8 + V3*age + V8*age - * Tvars {2, 1, 3, 3, 11, 10, 8, 8, 7, 8, 5, 6} - * {2, 1, 4, 8, 5, 6, 3, 7} - * Struct [] - */ + strcpy(modelsav,model); + if ((strpt=strstr(model,"age*age")) !=0){ + printf(" strpt=%s, model=1+age+%s\n",strpt, model); + if(strpt != model){ + printf("Error in model: 'model=1+age+%s'; 'age*age' should in first place before other covariates\n \ + 'model=1+age+age*age+V1.' or 'model=1+age+age*age+V1+V1*age.', please swap as well as \n \ + corresponding column of parameters.\n",model); + fprintf(ficlog,"Error in model: 'model=1+age+%s'; 'age*age' should in first place before other covariates\n \ + 'model=1+age+age*age+V1.' or 'model=1+age+age*age+V1+V1*age.', please swap as well as \n \ + corresponding column of parameters.\n",model); fflush(ficlog); + return 1; + } + nagesqr=1; + if (strstr(model,"+age*age") !=0) + substrchaine(modelsav, model, "+age*age"); + else if (strstr(model,"age*age+") !=0) + substrchaine(modelsav, model, "age*age+"); + else + substrchaine(modelsav, model, "age*age"); + }else + nagesqr=0; + if (strlen(modelsav) >1){ /* V2 +V3 +V4 +V6 +V7 +V6*V2 +V7*V2 +V6*V3 +V7*V3 +V6*V4 +V7*V4 +age*V2 +age*V3 +age*V4 +age*V6 +age*V7 +age*V6*V2 +V7*V2 +age*V6*V3 +age*V7*V3 +age*V6*V4 +age*V7*V4 */ + j=nbocc(modelsav,'+'); /**< j=Number of '+' */ + j1=nbocc(modelsav,'*'); /**< j1=Number of '*' */ + cptcovs=0; /**< Number of simple covariates V1 +V1*age +V3 +V3*V4 +age*age => V1 + V3 =4+1-3=2 Wrong */ + cptcovt= j+1; /* Number of total covariates in the model, not including + * cst, age and age*age + * V1+V1*age+ V3 + V3*V4+age*age=> 3+1=4*/ + /* including age products which are counted in cptcovage. + * but the covariates which are products must be treated + * separately: ncovn=4- 2=2 (V1+V3). */ + cptcovprod=0; /**< Number of products V1*V2 +v3*age = 2 */ + cptcovdageprod=0; /* Number of doouble products with age age*Vn*VM or Vn*age*Vm or Vn*Vm*age */ + cptcovprodnoage=0; /**< Number of covariate products without age: V3*V4 =1 */ + cptcovprodage=0; + /* cptcovprodage=nboccstr(modelsav,"age");*/ + + /* Design + * V1 V2 V3 V4 V5 V6 V7 V8 V9 Weight + * < ncovcol=8 > + * Model V2 + V1 + V3*age + V3 + V5*V6 + V7*V8 + V8*age + V8 + * k= 1 2 3 4 5 6 7 8 + * cptcovn number of covariates (not including constant and age ) = # of + plus 1 = 7+1=8 + * covar[k,i], are for fixed covariates, value of kth covariate if not including age for individual i: + * covar[1][i]= (V1), covar[4][i]=(V4), covar[8][i]=(V8) + * Tvar[k] # of the kth covariate: Tvar[1]=2 Tvar[2]=1 Tvar[4]=3 Tvar[8]=8 + * if multiplied by age: V3*age Tvar[3=V3*age]=3 (V3) Tvar[7]=8 and + * Tage[++cptcovage]=k + * if products, new covar are created after ncovcol + nqv (quanti fixed) with k1 + * Tvar[k]=ncovcol+k1; # of the kth covariate product: Tvar[5]=ncovcol+1=10 Tvar[6]=ncovcol+1=11 + * Tprod[k1]=k; Tprod[1]=5 Tprod[2]= 6; gives the position of the k1th product + * Tvard[k1][1]=m Tvard[k1][2]=m; Tvard[1][1]=5 (V5) Tvard[1][2]=6 Tvard[2][1]=7 (V7) Tvard[2][2]=8 + * Tvar[cptcovn+k2]=Tvard[k1][1];Tvar[cptcovn+k2+1]=Tvard[k1][2]; + * Tvar[8+1]=5;Tvar[8+2]=6;Tvar[8+3]=7;Tvar[8+4]=8 inverted + * V1 V2 V3 V4 V5 V6 V7 V8 V9 V10 V11 + * < ncovcol=8 8 fixed covariate. Additional starts at 9 (V5*V6) and 10(V7*V8) > + * Model V2 + V1 + V3*age + V3 + V5*V6 + V7*V8 + V8*age + V8 d1 d1 d2 d2 + * k= 1 2 3 4 5 6 7 8 9 10 11 12 + * Tvard[k]= 2 1 3 3 10 11 8 8 5 6 7 8 + * p Tvar[1]@12={2, 1, 3, 3, 9, 10, 8, 8} + * p Tprod[1]@2={ 6, 5} + *p Tvard[1][1]@4= {7, 8, 5, 6} + * covar[k][i]= V2 V1 ? V3 V5*V6? V7*V8? ? V8 + * cov[Tage[kk]+2]=covar[Tvar[Tage[kk]]][i]*cov[2]; + *How to reorganize? Tvars(orted) + * Model V1 + V2 + V3 + V8 + V5*V6 + V7*V8 + V3*age + V8*age + * Tvars {2, 1, 3, 3, 11, 10, 8, 8, 7, 8, 5, 6} + * {2, 1, 4, 8, 5, 6, 3, 7} + * Struct [] + */ + + /* This loop fills the array Tvar from the string 'model'.*/ + /* j is the number of + signs in the model V1+V2+V3 j=2 i=3 to 1 */ + /* modelsav=V2+V1+V4+age*V3 strb=age*V3 stra=V2+V1+V4 */ + /* k=4 (age*V3) Tvar[k=4]= 3 (from V3) Tage[cptcovage=1]=4 */ + /* k=3 V4 Tvar[k=3]= 4 (from V4) */ + /* k=2 V1 Tvar[k=2]= 1 (from V1) */ + /* k=1 Tvar[1]=2 (from V2) */ + /* k=5 Tvar[5] */ + /* for (k=1; k<=cptcovn;k++) { */ + /* cov[2+k]=nbcode[Tvar[k]][codtabm(ij,Tvar[k])]; */ + /* } */ + /* for (k=1; k<=cptcovage;k++) cov[2+Tage[k]]=nbcode[Tvar[Tage[k]]][codtabm(ij,Tvar[Tage[k])]]*cov[2]; */ + /* + * Treating invertedly V2+V1+V3*age+V2*V4 is as if written V2*V4 +V3*age + V1 + V2 */ + for(k=cptcovt; k>=1;k--){ /**< Number of covariates not including constant and age, neither age*age*/ + Tvar[k]=0; Tprod[k]=0; Tposprod[k]=0; + } + cptcovage=0; + + /* First loop in order to calculate */ + /* for age*VN*Vm + * Provides, Typevar[k], Tage[cptcovage], existcomb[n][m], FixedV[ncovcolt+k12] + * Tprod[k1]=k Tposprod[k]=k1; Tvard[k1][1] =m; + */ + /* Needs FixedV[Tvardk[k][1]] */ + /* For others: + * Sets Typevar[k]; + * Tvar[k]=ncovcol+nqv+ntv+nqtv+k11; + * Tposprod[k]=k11; + * Tprod[k11]=k; + * Tvardk[k][1] =m; + * Needs FixedV[Tvardk[k][1]] == 0 + */ + + for(k=1; k<=cptcovt;k++){ /* Loop on total covariates of the model line */ + cutl(stra,strb,modelsav,'+'); /* keeps in strb after the first '+' cutl from left to right + modelsav==V2+V1+V5*age+V4+V3*age strb=V3*age stra=V2+V1V5*age+V4 */ /*
"V5+V4+V3+V4*V3+V5*age+V1*age+V1" strb="V5" stra="V4+V3+V4*V3+V5*age+V1*age+V1" */ + if (nbocc(modelsav,'+')==0) + strcpy(strb,modelsav); /* and analyzes it */ + /* printf("i=%d a=%s b=%s sav=%s\n",i, stra,strb,modelsav);*/ + /*scanf("%d",i);*/ + if (strchr(strb,'*')) { /**< Model includes a product V2+V1+V5*age+ V4+V3*age strb=V3*age OR double product with age strb=age*V6*V2 or V6*V2*age or V6*age*V2 */ + cutl(strc,strd,strb,'*'); /**< k=1 strd*strc Vm*Vn: strb=V3*age(input) strc=age strd=V3 ; V3*V2 strc=V2, strd=V3 OR strb=age*V6*V2 strc=V6*V2 strd=age OR c=V2*age OR c=age*V2 */ + if(strchr(strc,'*')) { /**< Model with age and DOUBLE product: allowed since 0.99r44, strc=V6*V2 or V2*age or age*V2, strd=age or V6 or V6 */ + Typevar[k]=3; /* 3 for age and double product age*Vn*Vm varying of fixed */ + if(strstr(strc,"age")!=0) { /* It means that strc=V2*age or age*V2 and thus that strd=Vn */ + cutl(stre,strf,strc,'*') ; /* strf=age or Vm, stre=Vm or age. If strc=V6*V2 then strf=V6 and stre=V2 */ + strcpy(strc,strb); /* save strb(=age*Vn*Vm) into strc */ + /* We want strb=Vn*Vm */ + if(strcmp(strf,"age")==0){ /* strf is "age" so that stre=Vm =V2 . */ + strcpy(strb,strd); + strcat(strb,"*"); + strcat(strb,stre); + }else{ /* strf=Vm If strf=V6 then stre=V2 */ + strcpy(strb,strf); + strcat(strb,"*"); + strcat(strb,stre); + strcpy(strd,strb); /* in order for strd to not be "age" for next test (will be Vn*Vm */ + } + /* printf("DEBUG FIXED k=%d, Tage[k]=%d, Tvar[Tage[k]=%d,FixedV[Tvar[Tage[k]]]=%d\n",k,Tage[k],Tvar[Tage[k]],FixedV[Tvar[Tage[k]]]); */ + /* FixedV[Tvar[Tage[k]]]=0; /\* HERY not sure if V7*V4*age Fixed might not exist yet*\/ */ + }else{ /* strc=Vn*Vm (and strd=age) and should be strb=Vn*Vm but want to keep original strb double product */ + strcpy(stre,strb); /* save full b in stre */ + strcpy(strb,strc); /* save short c in new short b for next block strb=Vn*Vm*/ + strcpy(strf,strc); /* save short c in new short f */ + cutl(strc,strd,strf,'*'); /* We get strd=Vn and strc=Vm for next block (strb=Vn*Vm)*/ + /* strcpy(strc,stre);*/ /* save full e in c for future */ + } + cptcovdageprod++; /* double product with age Which product is it? */ + /* strcpy(strb,strc); /\* strb was age*V6*V2 or V6*V2*age or V6*age*V2 IS now V6*V2 or V2*age or age*V2 *\/ */ + /* cutl(strc,strd,strb,'*'); /\* strd= V6 or V2 or age and strc= V2 or age or V2 *\/ */ + cutl(stre,strb,strc,'V'); /* strc= Vn, stre is n; strb=V3*V2 stre=3 strc=*/ + n=atoi(stre); + cutl(strc,strb,strd,'V'); /* strd was Vm, strc is m */ + m=atoi(strc); + cptcovage++; /* Counts the number of covariates which include age as a product */ + Tage[cptcovage]=k; /* For age*V3*V2 gives the position in model of covariates associated with age Tage[1]=6 HERY too*/ + if(existcomb[n][m] == 0){ + /* r /home/brouard/Documents/Recherches/REVES/Zachary/Zach-2022/Feinuo_Sun/Feinuo-threeway/femV12V15_3wayintNBe.imach */ + printf("Warning in model combination V%d*V%d should exist in the model before adding V%d*V%d*age !\n",n,m,n,m); + fprintf(ficlog,"Warning in model combination V%d*V%d should exist in the model before adding V%d*V%d*age !\n",n,m,n,m); + fflush(ficlog); + k1++; /* The combination Vn*Vm will be in the model so we create it at k1 */ + k12++; + existcomb[n][m]=k1; + existcomb[m][n]=k1; + Tvar[k]=ncovcol+nqv+ntv+nqtv+k1; + Tprod[k1]=k; /* Tprod[1]=3(=V1*V4) for V2+V1+V1*V4+age*V3+V3*V2+ age*V6*V3 Gives the k position of the k1 double product Vn*Vm or age*Vn*Vm*/ + Tposprod[k]=k1; /* Tposprod[3]=1, Tposprod[2]=5 Gives the k1 double product Vn*Vm or age*Vn*Vm at the k position */ + Tvard[k1][1] =m; /* m 1 for V1*/ + Tvardk[k][1] =m; /* m 1 for V1*/ + Tvard[k1][2] =n; /* n 4 for V4*/ + Tvardk[k][2] =n; /* n 4 for V4*/ +/* Tvar[Tage[cptcovage]]=k1;*/ /* Tvar[6=age*V3*V2]=9 (new fixed covariate) */ /* We don't know about Fixed yet HERE */ + if( FixedV[Tvardk[k][1]] == 0 && FixedV[Tvardk[k][2]] == 0){ /* If the product is a fixed covariate then we feed the new column with Vn*Vm */ + for (i=1; i<=lastobs;i++){/* For fixed product */ + /* Computes the new covariate which is a product of + covar[n][i]* covar[m][i] and stores it at ncovol+k1 May not be defined */ + covar[ncovcolt+k1][i]=covar[atoi(stre)][i]*covar[atoi(strc)][i]; + } + cptcovprodage++; /* Counting the number of fixed covariate with age */ + FixedV[ncovcolt+k12]=0; /* We expand Vn*Vm */ + k12++; + FixedV[ncovcolt+k12]=0; + }else{ /*End of FixedV */ + cptcovprodvage++; /* Counting the number of varying covariate with age */ + FixedV[ncovcolt+k12]=1; /* We expand Vn*Vm */ + k12++; + FixedV[ncovcolt+k12]=1; + } + }else{ /* k1 Vn*Vm already exists */ + k11=existcomb[n][m]; + Tposprod[k]=k11; /* OK */ + Tvar[k]=Tvar[Tprod[k11]]; /* HERY */ + Tvardk[k][1]=m; + Tvardk[k][2]=n; + if( FixedV[Tvardk[k][1]] == 0 && FixedV[Tvardk[k][2]] == 0){ /* If the product is a fixed covariate then we feed the new column with Vn*Vm */ + /*cptcovage++;*/ /* Counts the number of covariates which include age as a product */ + cptcovprodage++; /* Counting the number of fixed covariate with age */ + /*Tage[cptcovage]=k;*/ /* For age*V3*V2 Tage[1]=V3*V3=9 HERY too*/ + Tvar[Tage[cptcovage]]=k1; + FixedV[ncovcolt+k12]=0; /* We expand Vn*Vm */ + k12++; + FixedV[ncovcolt+k12]=0; + }else{ /* Already exists but time varying (and age) */ + /*cptcovage++;*/ /* Counts the number of covariates which include age as a product */ + /*Tage[cptcovage]=k;*/ /* For age*V3*V2 Tage[1]=V3*V3=9 HERY too*/ + /* Tvar[Tage[cptcovage]]=k1; */ + cptcovprodvage++; + FixedV[ncovcolt+k12]=1; /* We expand Vn*Vm */ + k12++; + FixedV[ncovcolt+k12]=1; + } + } + /* Tage[cptcovage]=k; /\* V2+V1+V4+V3*age Tvar[4]=3, Tage[1] = 4 or V1+V1*age Tvar[2]=1, Tage[1]=2 *\/ */ + /* Tvar[k]=k11; /\* HERY *\/ */ + } else {/* simple product strb=age*Vn so that c=Vn and d=age, or strb=Vn*age so that c=age and d=Vn, or b=Vn*Vm so that c=Vm and d=Vn */ + cptcovprod++; + if (strcmp(strc,"age")==0) { /**< Model includes age: strb= Vn*age c=age d=Vn*/ + /* covar is not filled and then is empty */ + cutl(stre,strb,strd,'V'); /* strd=V3(input): stre="3" */ + Tvar[k]=atoi(stre); /* V2+V1+V5*age+V4+V3*age Tvar[5]=3 ; V1+V2*age Tvar[2]=2; V1+V1*age Tvar[2]=1 */ + Typevar[k]=1; /* 1 for age product */ + cptcovage++; /* Counts the number of covariates which include age as a product */ + Tage[cptcovage]=k; /* V2+V1+V4+V3*age Tvar[4]=3, Tage[1] = 4 or V1+V1*age Tvar[2]=1, Tage[1]=2 */ + if( FixedV[Tvar[k]] == 0){ + cptcovprodage++; /* Counting the number of fixed covariate with age */ + }else{ + cptcovprodvage++; /* Counting the number of fixedvarying covariate with age */ + } + /*printf("stre=%s ", stre);*/ + } else if (strcmp(strd,"age")==0) { /* strb= age*Vn c=Vn */ + cutl(stre,strb,strc,'V'); + Tvar[k]=atoi(stre); + Typevar[k]=1; /* 1 for age product */ + cptcovage++; + Tage[cptcovage]=k; + if( FixedV[Tvar[k]] == 0){ + cptcovprodage++; /* Counting the number of fixed covariate with age */ + }else{ + cptcovprodvage++; /* Counting the number of fixedvarying covariate with age */ + } + }else{ /* for product Vn*Vm */ + Typevar[k]=2; /* 2 for product Vn*Vm */ + cutl(stre,strb,strc,'V'); /* strc= Vn, stre is n; strb=V3*V2 stre=3 strc=*/ + n=atoi(stre); + cutl(strc,strb,strd,'V'); /* strd was Vm, strc is m */ + m=atoi(strc); + k1++; + cptcovprodnoage++; + if(existcomb[n][m] != 0 || existcomb[m][n] != 0){ + printf("Warning in model combination V%d*V%d already exists in the model in position k1=%d!\n",n,m,existcomb[n][m]); + fprintf(ficlog,"Warning in model combination V%d*V%d already exists in the model in position k1=%d!\n",n,m,existcomb[n][m]); + fflush(ficlog); + k11=existcomb[n][m]; + Tvar[k]=ncovcol+nqv+ntv+nqtv+k11; + Tposprod[k]=k11; + Tprod[k11]=k; + Tvardk[k][1] =m; /* m 1 for V1*/ + /* Tvard[k11][1] =m; /\* n 4 for V4*\/ */ + Tvardk[k][2] =n; /* n 4 for V4*/ + /* Tvard[k11][2] =n; /\* n 4 for V4*\/ */ + }else{ /* combination Vn*Vm doesn't exist we create it (no age)*/ + existcomb[n][m]=k1; + existcomb[m][n]=k1; + Tvar[k]=ncovcol+nqv+ntv+nqtv+k1; /* ncovcolt+k1; For model-covariate k tells which data-covariate to use but + because this model-covariate is a construction we invent a new column + which is after existing variables ncovcol+nqv+ntv+nqtv + k1 + If already ncovcol=4 and model= V2 + V1 + V1*V4 + age*V3 + V3*V2 + thus after V4 we invent V5 and V6 because age*V3 will be computed in 4 + Tvar[3=V1*V4]=4+1=5 Tvar[5=V3*V2]=4 + 2= 6, Tvar[4=age*V3]=3 etc */ + /* Please remark that the new variables are model dependent */ + /* If we have 4 variable but the model uses only 3, like in + * model= V1 + age*V1 + V2 + V3 + age*V2 + age*V3 + V1*V2 + V1*V3 + * k= 1 2 3 4 5 6 7 8 + * Tvar[k]=1 1 2 3 2 3 (5 6) (and not 4 5 because of V4 missing) + * Tage[kk] [1]= 2 [2]=5 [3]=6 kk=1 to cptcovage=3 + * Tvar[Tage[kk]][1]=2 [2]=2 [3]=3 + */ + /* We need to feed some variables like TvarVV, but later on next loop because of ncovv (k2) is not correct */ + Tprod[k1]=k; /* Tprod[1]=3(=V1*V4) for V2+V1+V1*V4+age*V3+V3*V2 +V6*V2*age */ + Tposprod[k]=k1; /* Tposprod[3]=1, Tposprod[2]=5 */ + Tvard[k1][1] =m; /* m 1 for V1*/ + Tvardk[k][1] =m; /* m 1 for V1*/ + Tvard[k1][2] =n; /* n 4 for V4*/ + Tvardk[k][2] =n; /* n 4 for V4*/ + k2=k2+2; /* k2 is initialize to -1, We want to store the n and m in Vn*Vm at the end of Tvar */ + /* Tvar[cptcovt+k2]=Tvard[k1][1]; /\* Tvar[(cptcovt=4+k2=1)=5]= 1 (V1) *\/ */ + /* Tvar[cptcovt+k2+1]=Tvard[k1][2]; /\* Tvar[(cptcovt=4+(k2=1)+1)=6]= 4 (V4) *\/ */ + /*ncovcol=4 and model=V2+V1+V1*V4+age*V3+V3*V2, Tvar[3]=5, Tvar[4]=6, cptcovt=5 */ + /* 1 2 3 4 5 | Tvar[5+1)=1, Tvar[7]=2 */ + if( FixedV[Tvardk[k][1]] == 0 && FixedV[Tvardk[k][2]] == 0){ /* If the product is a fixed covariate then we feed the new column with Vn*Vm */ + for (i=1; i<=lastobs;i++){/* For fixed product */ + /* Computes the new covariate which is a product of + covar[n][i]* covar[m][i] and stores it at ncovol+k1 May not be defined */ + covar[ncovcolt+k1][i]=covar[atoi(stre)][i]*covar[atoi(strc)][i]; + } + /* TvarVV[k2]=n; */ + /* FixedV[ncovcolt+k2]=0; /\* or FixedV[Tvar[k]]=0; FixedV[TvarVV[ncovv]]=0 HERE *\/ */ + /* TvarVV[k2+1]=m; */ + /* FixedV[ncovcolt+k2]=0; /\* or FixedV[Tvar[k]]=0; FixedV[TvarVV[ncovv]]=0 HERE *\/ */ + }else{ /* not FixedV */ + /* TvarVV[k2]=n; */ + /* FixedV[ncovcolt+k2]=0; /\* or FixedV[Tvar[k]]=0; FixedV[TvarVV[ncovv]]=0 HERE *\/ */ + /* TvarVV[k2+1]=m; */ + /* FixedV[ncovcolt+k2]=0; /\* or FixedV[Tvar[k]]=0; FixedV[TvarVV[ncovv]]=0 HERE *\/ */ + } + } /* End of creation of Vn*Vm if not created by age*Vn*Vm earlier */ + } /* End of product Vn*Vm */ + } /* End of age*double product or simple product */ + }else { /* not a product */ + /*printf("d=%s c=%s b=%s\n", strd,strc,strb);*/ + /* scanf("%d",i);*/ + cutl(strd,strc,strb,'V'); + ks++; /**< Number of simple covariates dummy or quantitative, fixe or varying */ + cptcovn++; /** V4+V3+V5: V4 and V3 timevarying dummy covariates, V5 timevarying quantitative */ + Tvar[k]=atoi(strd); + Typevar[k]=0; /* 0 for simple covariates */ + } + strcpy(modelsav,stra); /* modelsav=V2+V1+V4 stra=V2+V1+V4 */ + /*printf("a=%s b=%s sav=%s\n", stra,strb,modelsav); + scanf("%d",i);*/ + } /* end of loop + on total covariates */ + + + } /* end if strlen(modelsave == 0) age*age might exist */ + } /* end if strlen(model == 0) */ + cptcovs=cptcovt - cptcovdageprod - cptcovprod;/**< Number of simple covariates V1 +V1*age +V3 +V3*V4 +age*age + age*v4*V3=> V1 + V3 =4+1-3=2 */ - /* This loop fills the array Tvar from the string 'model'.*/ - /* j is the number of + signs in the model V1+V2+V3 j=2 i=3 to 1 */ - /* modelsav=V2+V1+V4+age*V3 strb=age*V3 stra=V2+V1+V4 */ - /* k=4 (age*V3) Tvar[k=4]= 3 (from V3) Tage[cptcovage=1]=4 */ - /* k=3 V4 Tvar[k=3]= 4 (from V4) */ - /* k=2 V1 Tvar[k=2]= 1 (from V1) */ - /* k=1 Tvar[1]=2 (from V2) */ - /* k=5 Tvar[5] */ - /* for (k=1; k<=cptcovn;k++) { */ - /* cov[2+k]=nbcode[Tvar[k]][codtab[ij][Tvar[k]]]; */ - /* } */ - /* for (k=1; k<=cptcovage;k++) cov[2+Tage[k]]=cov[2+Tage[k]]*cov[2]; */ - /* - * Treating invertedly V2+V1+V3*age+V2*V4 is as if written V2*V4 +V3*age + V1 + V2 */ - for(k=cptcovt; k>=1;k--) /**< Number of covariates */ - Tvar[k]=0; - cptcovage=0; - for(k=1; k<=cptcovt;k++){ /* Loop on total covariates of the model */ - cutl(stra,strb,modelsav,'+'); /* keeps in strb after the first '+' - modelsav==V2+V1+V4+V3*age strb=V3*age stra=V2+V1+V4 */ - if (nbocc(modelsav,'+')==0) strcpy(strb,modelsav); /* and analyzes it */ - /* printf("i=%d a=%s b=%s sav=%s\n",i, stra,strb,modelsav);*/ - /*scanf("%d",i);*/ - if (strchr(strb,'*')) { /**< Model includes a product V2+V1+V4+V3*age strb=V3*age */ - cutl(strc,strd,strb,'*'); /**< strd*strc Vm*Vn: strb=V3*age(input) strc=age strd=V3 ; V3*V2 strc=V2, strd=V3 */ - if (strcmp(strc,"age")==0) { /**< Model includes age: Vn*age */ - /* covar is not filled and then is empty */ - cptcovprod--; - cutl(stre,strb,strd,'V'); /* strd=V3(input): stre="3" */ - Tvar[k]=atoi(stre); /* V2+V1+V4+V3*age Tvar[4]=3 ; V1+V2*age Tvar[2]=2 */ - cptcovage++; /* Sums the number of covariates which include age as a product */ - Tage[cptcovage]=k; /* Tage[1] = 4 */ - /*printf("stre=%s ", stre);*/ - } else if (strcmp(strd,"age")==0) { /* or age*Vn */ - cptcovprod--; - cutl(stre,strb,strc,'V'); - Tvar[k]=atoi(stre); - cptcovage++; - Tage[cptcovage]=k; - } else { /* Age is not in the model product V2+V1+V1*V4+V3*age+V3*V2 strb=V3*V2*/ - /* loops on k1=1 (V3*V2) and k1=2 V4*V3 */ - cptcovn++; - cptcovprodnoage++;k1++; - cutl(stre,strb,strc,'V'); /* strc= Vn, stre is n; strb=V3*V2 stre=3 strc=*/ - Tvar[k]=ncovcol+k1; /* For model-covariate k tells which data-covariate to use but - because this model-covariate is a construction we invent a new column - ncovcol + k1 - If already ncovcol=4 and model=V2+V1+V1*V4+age*V3+V3*V2 - Tvar[3=V1*V4]=4+1 Tvar[5=V3*V2]=4 + 2= 6, etc */ - cutl(strc,strb,strd,'V'); /* strd was Vm, strc is m */ - Tprod[k1]=k; /* Tprod[1]=3(=V1*V4) for V2+V1+V1*V4+age*V3+V3*V2 */ - Tvard[k1][1] =atoi(strc); /* m 1 for V1*/ - Tvard[k1][2] =atoi(stre); /* n 4 for V4*/ - k2=k2+2; - Tvar[cptcovt+k2]=Tvard[k1][1]; /* Tvar[(cptcovt=4+k2=1)=5]= 1 (V1) */ - Tvar[cptcovt+k2+1]=Tvard[k1][2]; /* Tvar[(cptcovt=4+(k2=1)+1)=6]= 4 (V4) */ - for (i=1; i<=lastobs;i++){ - /* Computes the new covariate which is a product of - covar[n][i]* covar[m][i] and stores it at ncovol+k1 May not be defined */ - covar[ncovcol+k1][i]=covar[atoi(stre)][i]*covar[atoi(strc)][i]; - } - } /* End age is not in the model */ - } /* End if model includes a product */ - else { /* no more sum */ - /*printf("d=%s c=%s b=%s\n", strd,strc,strb);*/ - /* scanf("%d",i);*/ - cutl(strd,strc,strb,'V'); - ks++; /**< Number of simple covariates */ - cptcovn++; - Tvar[k]=atoi(strd); - } - strcpy(modelsav,stra); /* modelsav=V2+V1+V4 stra=V2+V1+V4 */ - /*printf("a=%s b=%s sav=%s\n", stra,strb,modelsav); - scanf("%d",i);*/ - } /* end of loop + */ - } /* end model */ - /*The number n of Vn is stored in Tvar. cptcovage =number of age covariate. Tage gives the position of age. cptcovprod= number of products. If model=V1+V1*age then Tvar[1]=1 Tvar[2]=1 cptcovage=1 Tage[1]=2 cptcovprod=0*/ - + /* printf("tvar1=%d tvar2=%d tvar3=%d cptcovage=%d Tage=%d",Tvar[1],Tvar[2],Tvar[3],cptcovage,Tage[1]); - printf("cptcovprod=%d ", cptcovprod); - fprintf(ficlog,"cptcovprod=%d ", cptcovprod); + printf("cptcovprod=%d ", cptcovprod); + fprintf(ficlog,"cptcovprod=%d ", cptcovprod); + scanf("%d ",i);*/ + + +/* Until here, decodemodel knows only the grammar (simple, product, age*) of the model but not what kind + of variable (dummy vs quantitative, fixed vs time varying) is behind. But we know the # of each. */ +/* ncovcol= 1, nqv=1 | ntv=2, nqtv= 1 = 5 possible variables data: 2 fixed 3, varying + model= V5 + V4 +V3 + V4*V3 + V5*age + V2 + V1*V2 + V1*age + V5*age, V1 is not used saving its place + k = 1 2 3 4 5 6 7 8 9 + Tvar[k]= 5 4 3 1+1+2+1+1=6 5 2 7 1 5 + Typevar[k]= 0 0 0 2 1 0 2 1 0 + Fixed[k] 1 1 1 1 3 0 0 or 2 2 3 + Dummy[k] 1 0 0 0 3 1 1 2 3 + Tmodelind[combination of covar]=k; +*/ +/* Dispatching between quantitative and time varying covariates */ + /* If Tvar[k] >ncovcol it is a product */ + /* Tvar[k] is the value n of Vn with n varying for 1 to nvcol, or p Vp=Vn*Vm for product */ + /* Computing effective variables, ie used by the model, that is from the cptcovt variables */ + printf("Model=1+age+%s\n\ +Typevar: 0 for simple covariate (dummy, quantitative, fixed or varying), 1 for age product, 2 for product, 3 for double product with age \n\ +Fixed[k] 0=fixed (product or simple), 1 varying, 2 fixed with age product, 3 varying with age product \n\ +Dummy[k] 0=dummy (0 1), 1 quantitative (single or product without age), 2 dummy with age product, 3 quant with age product\n",model); + fprintf(ficlog,"Model=1+age+%s\n\ +Typevar: 0 for simple covariate (dummy, quantitative, fixed or varying), 1 for age product, 2 for product, 3 for double product with age \n\ +Fixed[k] 0=fixed (product or simple), 1 varying, 2 fixed with age product, 3 varying with age product \n\ +Dummy[k] 0=dummy (0 1), 1 quantitative (single or product without age), 2 dummy with age product, 3 quant with age product\n",model); + for(k=-1;k<=NCOVMAX; k++){ Fixed[k]=0; Dummy[k]=0;} + for(k=1;k<=NCOVMAX; k++){TvarFind[k]=0; TvarVind[k]=0;} - scanf("%d ",i);*/ + /* Second loop for calculating Fixed[k], Dummy[k]*/ + + + for(k=1, ncovf=0, nsd=0, nsq=0, ncovv=0,ncovva=0,ncovvta=0, ncova=0, ncoveff=0, nqfveff=0, ntveff=0, nqtveff=0, ncovvt=0;k<=cptcovt; k++){ /* or cptocvt loop on k from model */ + if (Tvar[k] <=ncovcol && Typevar[k]==0 ){ /* Simple fixed dummy (<=ncovcol) covariates */ + Fixed[k]= 0; + Dummy[k]= 0; + ncoveff++; + ncovf++; + nsd++; + modell[k].maintype= FTYPE; + TvarsD[nsd]=Tvar[k]; + TvarsDind[nsd]=k; + TnsdVar[Tvar[k]]=nsd; + TvarF[ncovf]=Tvar[k]; + TvarFind[ncovf]=k; + TvarFD[ncoveff]=Tvar[k]; /* TvarFD[1]=V1 in V5+V4+V3+V4*V3+V5*age+V2+V1*V2+V1*age+V1 */ + TvarFDind[ncoveff]=k; /* TvarFDind[1]=9 in V5+V4+V3+V4*V3+V5*age+V2+V1*V2+V1*age+V1 */ + /* }else if( Tvar[k] <=ncovcol && Typevar[k]==2){ /\* Product of fixed dummy (<=ncovcol) covariates For a fixed product k is higher than ncovcol *\/ */ + }else if( Tvar[k] <=ncovcol+nqv && Typevar[k]==0){/* Remind that product Vn*Vm are added in k Only simple fixed quantitative variable */ + Fixed[k]= 0; + Dummy[k]= 1; + nqfveff++; + modell[k].maintype= FTYPE; + modell[k].subtype= FQ; + nsq++; + TvarsQ[nsq]=Tvar[k]; /* Gives the variable name (extended to products) of first nsq simple quantitative covariates (fixed or time vary see below */ + TvarsQind[nsq]=k; /* Gives the position in the model equation of the first nsq simple quantitative covariates (fixed or time vary) */ + ncovf++; + TvarF[ncovf]=Tvar[k]; + TvarFind[ncovf]=k; + TvarFQ[nqfveff]=Tvar[k]-ncovcol; /* TvarFQ[1]=V2-1=1st in V5+V4+V3+V4*V3+V5*age+V2+V1*V2+V1*age+V1 */ /* Only simple fixed quantitative variable */ + TvarFQind[nqfveff]=k; /* TvarFQind[1]=6 in V5+V4+V3+V4*V3+V5*age+V2+V1*V2+V1*age+V1 */ /* Only simple fixed quantitative variable */ + }else if( Tvar[k] <=ncovcol+nqv+ntv && Typevar[k]==0){/* Only simple time varying dummy variables */ + /*# ID V1 V2 weight birth death 1st s1 V3 V4 V5 2nd s2 */ + /* model V1+V3+age*V1+age*V3+V1*V3 */ + /* Tvar={1, 3, 1, 3, 6}, the 6 comes from the fact that there are already V1, V2, V3, V4, V5 native covariates */ + ncovvt++; + TvarVV[ncovvt]=Tvar[k]; /* TvarVV[1]=V3 (first time varying in the model equation */ + TvarVVind[ncovvt]=k; /* TvarVVind[1]=2 (second position in the model equation */ + + Fixed[k]= 1; + Dummy[k]= 0; + ntveff++; /* Only simple time varying dummy variable */ + modell[k].maintype= VTYPE; + modell[k].subtype= VD; + nsd++; + TvarsD[nsd]=Tvar[k]; + TvarsDind[nsd]=k; + TnsdVar[Tvar[k]]=nsd; /* To be verified */ + ncovv++; /* Only simple time varying variables */ + TvarV[ncovv]=Tvar[k]; + TvarVind[ncovv]=k; /* TvarVind[2]=2 TvarVind[3]=3 in V5+V4+V3+V4*V3+V5*age+V2+V1*V2+V1*age+V1 */ /* Any time varying singele */ + TvarVD[ntveff]=Tvar[k]; /* TvarVD[1]=V4 TvarVD[2]=V3 in V5+V4+V3+V4*V3+V5*age+V2+V1*V2+V1*age+V1 */ /* Only simple time varying dummy variable */ + TvarVDind[ntveff]=k; /* TvarVDind[1]=2 TvarVDind[2]=3 in V5+V4+V3+V4*V3+V5*age+V2+V1*V2+V1*age+V1 */ /* Only simple time varying dummy variable */ + printf("Quasi Tmodelind[%d]=%d,Tvar[Tmodelind[%d]]=V%d, ncovcol=%d, nqv=%d,Tvar[k]- ncovcol-nqv=%d\n",ntveff,k,ntveff,Tvar[k], ncovcol, nqv,Tvar[k]- ncovcol-nqv); + printf("Quasi TmodelInvind[%d]=%d\n",k,Tvar[k]- ncovcol-nqv); + }else if( Tvar[k] <=ncovcol+nqv+ntv+nqtv && Typevar[k]==0){ /* Only simple time varying quantitative variable V5*/ + /*# ID V1 V2 weight birth death 1st s1 V3 V4 V5 2nd s2 */ + /* model V1+V3+age*V1+age*V3+V1*V3 */ + /* Tvar={1, 3, 1, 3, 6}, the 6 comes from the fact that there are already V1, V2, V3, V4, V5 native covariates */ + ncovvt++; + TvarVV[ncovvt]=Tvar[k]; /* TvarVV[1]=V3 (first time varying in the model equation */ + TvarVVind[ncovvt]=k; /* TvarVV[1]=V3 (first time varying in the model equation */ + + Fixed[k]= 1; + Dummy[k]= 1; + nqtveff++; + modell[k].maintype= VTYPE; + modell[k].subtype= VQ; + ncovv++; /* Only simple time varying variables */ + nsq++; + TvarsQ[nsq]=Tvar[k]; /* k=1 Tvar=5 nsq=1 TvarsQ[1]=5 */ /* Gives the variable name (extended to products) of first nsq simple quantitative covariates (fixed or time vary here) */ + TvarsQind[nsq]=k; /* For single quantitative covariate gives the model position of each single quantitative covariate *//* Gives the position in the model equation of the first nsq simple quantitative covariates (fixed or time vary) */ + TvarV[ncovv]=Tvar[k]; + TvarVind[ncovv]=k; /* TvarVind[1]=1 in V5+V4+V3+V4*V3+V5*age+V2+V1*V2+V1*age+V1 */ /* Any time varying singele */ + TvarVQ[nqtveff]=Tvar[k]; /* TvarVQ[1]=V5 in V5+V4+V3+V4*V3+V5*age+V2+V1*V2+V1*age+V1 */ /* Only simple time varying quantitative variable */ + TvarVQind[nqtveff]=k; /* TvarVQind[1]=1 in V5+V4+V3+V4*V3+V5*age+V2+V1*V2+V1*age+V1 */ /* Only simple time varying quantitative variable */ + TmodelInvQind[nqtveff]=Tvar[k]- ncovcol-nqv-ntv;/* Only simple time varying quantitative variable */ + /* Tmodeliqind[k]=nqtveff;/\* Only simple time varying quantitative variable *\/ */ + /* printf("Quasi TmodelQind[%d]=%d,Tvar[TmodelQind[%d]]=V%d, ncovcol=%d, nqv=%d, ntv=%Ad,Tvar[k]- ncovcol-nqv-ntv=%d\n",nqtveff,k,nqtveff,Tvar[k], ncovcol, nqv, ntv, Tvar[k]- ncovcol-nqv-ntv); */ + /* printf("Quasi TmodelInvQind[%d]=%d\n",k,Tvar[k]- ncovcol-nqv-ntv); */ + }else if (Typevar[k] == 1) { /* product with age */ + ncova++; + TvarA[ncova]=Tvar[k]; + TvarAind[ncova]=k; + /** Fixed[k] 0=fixed, 1 varying, 2 fixed with age product, 3 varying with age product */ + /** Dummy[k] 0=dummy (0 1), 1 quantitative (single or product without age), 2 dummy with age product, 3 quant with age product */ + if (Tvar[k] <=ncovcol ){ /* Product age with fixed dummy covariatee */ + Fixed[k]= 2; + Dummy[k]= 2; + modell[k].maintype= ATYPE; + modell[k].subtype= APFD; + ncovta++; + TvarAVVA[ncovta]=Tvar[k]; /* (2)age*V3 */ + TvarAVVAind[ncovta]=k; + /* ncoveff++; */ + }else if( Tvar[k] <=ncovcol+nqv) { /* Remind that product Vn*Vm are added in k*/ + Fixed[k]= 2; + Dummy[k]= 3; + modell[k].maintype= ATYPE; + modell[k].subtype= APFQ; /* Product age * fixed quantitative */ + ncovta++; + TvarAVVA[ncovta]=Tvar[k]; /* */ + TvarAVVAind[ncovta]=k; + /* nqfveff++; /\* Only simple fixed quantitative variable *\/ */ + }else if( Tvar[k] <=ncovcol+nqv+ntv ){ + Fixed[k]= 3; + Dummy[k]= 2; + modell[k].maintype= ATYPE; + modell[k].subtype= APVD; /* Product age * varying dummy */ + ncovva++; + TvarVVA[ncovva]=Tvar[k]; /* (1)+age*V6 + (2)age*V7 */ + TvarVVAind[ncovva]=k; + ncovta++; + TvarAVVA[ncovta]=Tvar[k]; /* */ + TvarAVVAind[ncovta]=k; + /* ntveff++; /\* Only simple time varying dummy variable *\/ */ + }else if( Tvar[k] <=ncovcol+nqv+ntv+nqtv){ + Fixed[k]= 3; + Dummy[k]= 3; + modell[k].maintype= ATYPE; + modell[k].subtype= APVQ; /* Product age * varying quantitative */ + ncovva++; + TvarVVA[ncovva]=Tvar[k]; /* */ + TvarVVAind[ncovva]=k; + ncovta++; + TvarAVVA[ncovta]=Tvar[k]; /* (1)+age*V6 + (2)age*V7 */ + TvarAVVAind[ncovta]=k; + /* nqtveff++;/\* Only simple time varying quantitative variable *\/ */ + } + }else if( Tposprod[k]>0 && Typevar[k]==2){ /* Detects if fixed product no age Vm*Vn */ + printf("MEMORY ERRORR k=%d Tposprod[k]=%d, Typevar[k]=%d\n ",k, Tposprod[k], Typevar[k]); + if(FixedV[Tvardk[k][1]] == 0 && FixedV[Tvardk[k][2]] == 0){ /* Needs a fixed product Product of fixed dummy (<=ncovcol) covariates For a fixed product k is higher than ncovcol V3*V2 */ + printf("MEMORY ERRORR k=%d Tvardk[k][1]=%d, Tvardk[k][2]=%d, FixedV[Tvardk[k][1]]=%d,FixedV[Tvardk[k][2]]=%d\n ",k,Tvardk[k][1],Tvardk[k][2],FixedV[Tvardk[k][1]],FixedV[Tvardk[k][2]]); + Fixed[k]= 0; + Dummy[k]= 0; + ncoveff++; + ncovf++; + /* ncovv++; */ + /* TvarVV[ncovv]=Tvardk[k][1]; */ + /* FixedV[ncovcolt+ncovv]=0; /\* or FixedV[TvarVV[ncovv]]=0 HERE *\/ */ + /* ncovv++; */ + /* TvarVV[ncovv]=Tvardk[k][2]; */ + /* FixedV[ncovcolt+ncovv]=0; /\* or FixedV[TvarVV[ncovv]]=0 HERE *\/ */ + modell[k].maintype= FTYPE; + TvarF[ncovf]=Tvar[k]; + /* TnsdVar[Tvar[k]]=nsd; */ /* To be done */ + TvarFind[ncovf]=k; + TvarFD[ncoveff]=Tvar[k]; /* TvarFD[1]=V1 in V5+V4+V3+V4*V3+V5*age+V2+V1*V2+V1*age+V1 */ + TvarFDind[ncoveff]=k; /* TvarFDind[1]=9 in V5+V4+V3+V4*V3+V5*age+V2+V1*V2+V1*age+V1 */ + }else{/* product varying Vn * Vm without age, V1+V3+age*V1+age*V3+V1*V3 looking at V1*V3, Typevar={0, 0, 1, 1, 2}, k=5, V1 is fixed, V3 is timevary, V5 is a product */ + /*# ID V1 V2 weight birth death 1st s1 V3 V4 V5 2nd s2 */ + /* model V1+V3+age*V1+age*V3+V1*V3 + V1*V3*age*/ + /* Tvar={1, 3, 1, 3, 6, 6}, the 6 comes from the fact that there are already V1, V2, V3, V4, V5 native covariates */ + k1=Tposprod[k]; /* Position in the products of product k, Tposprod={0, 0, 0, 0, 1, 1} k1=1 first product but second time varying because of V3 */ + ncovvt++; + TvarVV[ncovvt]=Tvard[k1][1]; /* TvarVV[2]=V1 (because TvarVV[1] was V3, first time varying covariates */ + TvarVVind[ncovvt]=k; /* TvarVVind[2]=5 (because TvarVVind[2] was V1*V3 at position 5 */ + ncovvt++; + TvarVV[ncovvt]=Tvard[k1][2]; /* TvarVV[3]=V3 */ + TvarVVind[ncovvt]=k; /* TvarVVind[2]=5 (because TvarVVind[2] was V1*V3 at position 5 */ + + /** Fixed[k] 0=fixed, 1 varying, 2 fixed with age product, 3 varying with age product */ + /** Dummy[k] 0=dummy (0 1), 1 quantitative (single or product without age), 2 dummy with age product, 3 quant with age product */ + + if(Tvard[k1][1] <=ncovcol){ /* Vn is dummy fixed, (Tvard[1][1]=V1), (Tvard[1][1]=V3 time varying) */ + if(Tvard[k1][2] <=ncovcol){ /* Vm is dummy fixed */ + Fixed[k]= 1; + Dummy[k]= 0; + modell[k].maintype= FTYPE; + modell[k].subtype= FPDD; /* Product fixed dummy * fixed dummy */ + ncovf++; /* Fixed variables without age */ + TvarF[ncovf]=Tvar[k]; + TvarFind[ncovf]=k; + }else if(Tvard[k1][2] <=ncovcol+nqv){ /* Vm is quanti fixed */ + Fixed[k]= 0; /* Fixed product */ + Dummy[k]= 1; + modell[k].maintype= FTYPE; + modell[k].subtype= FPDQ; /* Product fixed dummy * fixed quantitative */ + ncovf++; /* Varying variables without age */ + TvarF[ncovf]=Tvar[k]; + TvarFind[ncovf]=k; + }else if(Tvard[k1][2] <=ncovcol+nqv+ntv){ /* Vm is a time varying dummy covariate */ + Fixed[k]= 1; + Dummy[k]= 0; + modell[k].maintype= VTYPE; + modell[k].subtype= VPDD; /* Product fixed dummy * varying dummy */ + ncovv++; /* Varying variables without age */ + TvarV[ncovv]=Tvar[k]; /* TvarV[1]=Tvar[5]=5 because there is a V4 */ + TvarVind[ncovv]=k;/* TvarVind[1]=5 */ + }else if(Tvard[k1][2] <=ncovcol+nqv+ntv+nqtv){ /* Vm is a time varying quantitative covariate */ + Fixed[k]= 1; + Dummy[k]= 1; + modell[k].maintype= VTYPE; + modell[k].subtype= VPDQ; /* Product fixed dummy * varying quantitative */ + ncovv++; /* Varying variables without age */ + TvarV[ncovv]=Tvar[k]; + TvarVind[ncovv]=k; + } + }else if(Tvard[k1][1] <=ncovcol+nqv){ /* Vn is fixed quanti */ + if(Tvard[k1][2] <=ncovcol){ /* Vm is fixed dummy */ + Fixed[k]= 0; /* Fixed product */ + Dummy[k]= 1; + modell[k].maintype= FTYPE; + modell[k].subtype= FPDQ; /* Product fixed quantitative * fixed dummy */ + ncovf++; /* Fixed variables without age */ + TvarF[ncovf]=Tvar[k]; + TvarFind[ncovf]=k; + }else if(Tvard[k1][2] <=ncovcol+nqv+ntv){ /* Vm is time varying */ + Fixed[k]= 1; + Dummy[k]= 1; + modell[k].maintype= VTYPE; + modell[k].subtype= VPDQ; /* Product fixed quantitative * varying dummy */ + ncovv++; /* Varying variables without age */ + TvarV[ncovv]=Tvar[k]; + TvarVind[ncovv]=k; + }else if(Tvard[k1][2] <=ncovcol+nqv+ntv+nqtv){ /* Vm is time varying quanti */ + Fixed[k]= 1; + Dummy[k]= 1; + modell[k].maintype= VTYPE; + modell[k].subtype= VPQQ; /* Product fixed quantitative * varying quantitative */ + ncovv++; /* Varying variables without age */ + TvarV[ncovv]=Tvar[k]; + TvarVind[ncovv]=k; + ncovv++; /* Varying variables without age */ + TvarV[ncovv]=Tvar[k]; + TvarVind[ncovv]=k; + } + }else if(Tvard[k1][1] <=ncovcol+nqv+ntv){ /* Vn is time varying dummy */ + if(Tvard[k1][2] <=ncovcol){ + Fixed[k]= 1; + Dummy[k]= 1; + modell[k].maintype= VTYPE; + modell[k].subtype= VPDD; /* Product time varying dummy * fixed dummy */ + ncovv++; /* Varying variables without age */ + TvarV[ncovv]=Tvar[k]; + TvarVind[ncovv]=k; + }else if(Tvard[k1][2] <=ncovcol+nqv){ + Fixed[k]= 1; + Dummy[k]= 1; + modell[k].maintype= VTYPE; + modell[k].subtype= VPDQ; /* Product time varying dummy * fixed quantitative */ + ncovv++; /* Varying variables without age */ + TvarV[ncovv]=Tvar[k]; + TvarVind[ncovv]=k; + }else if(Tvard[k1][2] <=ncovcol+nqv+ntv){ + Fixed[k]= 1; + Dummy[k]= 0; + modell[k].maintype= VTYPE; + modell[k].subtype= VPDD; /* Product time varying dummy * time varying dummy */ + ncovv++; /* Varying variables without age */ + TvarV[ncovv]=Tvar[k]; + TvarVind[ncovv]=k; + }else if(Tvard[k1][2] <=ncovcol+nqv+ntv+nqtv){ + Fixed[k]= 1; + Dummy[k]= 1; + modell[k].maintype= VTYPE; + modell[k].subtype= VPDQ; /* Product time varying dummy * time varying quantitative */ + ncovv++; /* Varying variables without age */ + TvarV[ncovv]=Tvar[k]; + TvarVind[ncovv]=k; + } + }else if(Tvard[k1][1] <=ncovcol+nqv+ntv+nqtv){ /* Vn is time varying quanti */ + if(Tvard[k1][2] <=ncovcol){ + Fixed[k]= 1; + Dummy[k]= 1; + modell[k].maintype= VTYPE; + modell[k].subtype= VPDQ; /* Product time varying quantitative * fixed dummy */ + ncovv++; /* Varying variables without age */ + TvarV[ncovv]=Tvar[k]; + TvarVind[ncovv]=k; + }else if(Tvard[k1][2] <=ncovcol+nqv){ + Fixed[k]= 1; + Dummy[k]= 1; + modell[k].maintype= VTYPE; + modell[k].subtype= VPQQ; /* Product time varying quantitative * fixed quantitative */ + ncovv++; /* Varying variables without age */ + TvarV[ncovv]=Tvar[k]; + TvarVind[ncovv]=k; + }else if(Tvard[k1][2] <=ncovcol+nqv+ntv){ + Fixed[k]= 1; + Dummy[k]= 1; + modell[k].maintype= VTYPE; + modell[k].subtype= VPDQ; /* Product time varying quantitative * time varying dummy */ + ncovv++; /* Varying variables without age */ + TvarV[ncovv]=Tvar[k]; + TvarVind[ncovv]=k; + }else if(Tvard[k1][2] <=ncovcol+nqv+ntv+nqtv){ + Fixed[k]= 1; + Dummy[k]= 1; + modell[k].maintype= VTYPE; + modell[k].subtype= VPQQ; /* Product time varying quantitative * time varying quantitative */ + ncovv++; /* Varying variables without age */ + TvarV[ncovv]=Tvar[k]; + TvarVind[ncovv]=k; + } + }else{ + printf("Error unknown type of covariate: Tvard[%d][1]=%d,Tvard[%d][2]=%d\n",k1,Tvard[k1][1],k1,Tvard[k1][2]); + fprintf(ficlog,"Error unknown type of covariate: Tvard[%d][1]=%d,Tvard[%d][2]=%d\n",k1,Tvard[k1][1],k1,Tvard[k1][2]); + } /*end k1*/ + } + }else if(Typevar[k] == 3){ /* product Vn * Vm with age, V1+V3+age*V1+age*V3+V1*V3 looking at V1*V3, Typevar={0, 0, 1, 1, 2}, k=5, V1 is fixed, V3 is timevary, V5 is a product */ + /*# ID V1 V2 weight birth death 1st s1 V3 V4 V5 2nd s2 */ + /* model V1+V3+age*V1+age*V3+V1*V3 + V1*V3*age*/ + /* Tvar={1, 3, 1, 3, 6, 6}, the 6 comes from the fact that there are already V1, V2, V3, V4, V5 native covariates */ + k1=Tposprod[k]; /* Position in the products of product k, Tposprod={0, 0, 0, 0, 1, 1} k1=1 first product but second time varying because of V3 */ + ncova++; + TvarA[ncova]=Tvard[k1][1]; /* TvarVV[2]=V1 (because TvarVV[1] was V3, first time varying covariates */ + TvarAind[ncova]=k; /* TvarVVind[2]=5 (because TvarVVind[2] was V1*V3 at position 5 */ + ncova++; + TvarA[ncova]=Tvard[k1][2]; /* TvarVV[3]=V3 */ + TvarAind[ncova]=k; /* TvarVVind[2]=5 (because TvarVVind[2] was V1*V3 at position 5 */ + + /** Fixed[k] 0=fixed, 1 varying, 2 fixed with age product, 3 varying with age product */ + /** Dummy[k] 0=dummy (0 1), 1 quantitative (single or product without age), 2 dummy with age product, 3 quant with age product */ + if( FixedV[Tvardk[k][1]] == 0 && FixedV[Tvardk[k][2]] == 0){ + ncovta++; + TvarAVVA[ncovta]=Tvard[k1][1]; /* age*V6*V3 +age*V7*V3 + age*V6*V4 +age*V7*V4 */ + TvarAVVAind[ncovta]=k; + ncovta++; + TvarAVVA[ncovta]=Tvard[k1][2]; /* age*V6*V3 +age*V7*V3 + age*V6*V4 +age*V7*V4 */ + TvarAVVAind[ncovta]=k; + }else{ + ncovva++; /* HERY reached */ + TvarVVA[ncovva]=Tvard[k1][1]; /* age*V6*V3 +age*V7*V3 + age*V6*V4 +age*V7*V4 */ + TvarVVAind[ncovva]=k; + ncovva++; + TvarVVA[ncovva]=Tvard[k1][2]; /* */ + TvarVVAind[ncovva]=k; + ncovta++; + TvarAVVA[ncovta]=Tvard[k1][1]; /* age*V6*V3 +age*V7*V3 + age*V6*V4 +age*V7*V4 */ + TvarAVVAind[ncovta]=k; + ncovta++; + TvarAVVA[ncovta]=Tvard[k1][2]; /* age*V6*V3 +age*V7*V3 + age*V6*V4 +age*V7*V4 */ + TvarAVVAind[ncovta]=k; + } + if(Tvard[k1][1] <=ncovcol){ /* Vn is dummy fixed, (Tvard[1][1]=V1), (Tvard[1][1]=V3 time varying) */ + if(Tvard[k1][2] <=ncovcol){ /* Vm is dummy fixed */ + Fixed[k]= 2; + Dummy[k]= 2; + modell[k].maintype= FTYPE; + modell[k].subtype= FPDD; /* Product fixed dummy * fixed dummy */ + /* TvarF[ncova]=Tvar[k]; /\* Problem to solve *\/ */ + /* TvarFind[ncova]=k; */ + }else if(Tvard[k1][2] <=ncovcol+nqv){ /* Vm is quanti fixed */ + Fixed[k]= 2; /* Fixed product */ + Dummy[k]= 3; + modell[k].maintype= FTYPE; + modell[k].subtype= FPDQ; /* Product fixed dummy * fixed quantitative */ + /* TvarF[ncova]=Tvar[k]; */ + /* TvarFind[ncova]=k; */ + }else if(Tvard[k1][2] <=ncovcol+nqv+ntv){ /* Vm is a time varying dummy covariate */ + Fixed[k]= 3; + Dummy[k]= 2; + modell[k].maintype= VTYPE; + modell[k].subtype= VPDD; /* Product fixed dummy * varying dummy */ + TvarV[ncova]=Tvar[k]; /* TvarV[1]=Tvar[5]=5 because there is a V4 */ + TvarVind[ncova]=k;/* TvarVind[1]=5 */ + }else if(Tvard[k1][2] <=ncovcol+nqv+ntv+nqtv){ /* Vm is a time varying quantitative covariate */ + Fixed[k]= 3; + Dummy[k]= 3; + modell[k].maintype= VTYPE; + modell[k].subtype= VPDQ; /* Product fixed dummy * varying quantitative */ + /* ncovv++; /\* Varying variables without age *\/ */ + /* TvarV[ncovv]=Tvar[k]; */ + /* TvarVind[ncovv]=k; */ + } + }else if(Tvard[k1][1] <=ncovcol+nqv){ /* Vn is fixed quanti */ + if(Tvard[k1][2] <=ncovcol){ /* Vm is fixed dummy */ + Fixed[k]= 2; /* Fixed product */ + Dummy[k]= 2; + modell[k].maintype= FTYPE; + modell[k].subtype= FPDQ; /* Product fixed quantitative * fixed dummy */ + /* ncova++; /\* Fixed variables with age *\/ */ + /* TvarF[ncovf]=Tvar[k]; */ + /* TvarFind[ncovf]=k; */ + }else if(Tvard[k1][2] <=ncovcol+nqv+ntv){ /* Vm is time varying */ + Fixed[k]= 2; + Dummy[k]= 3; + modell[k].maintype= VTYPE; + modell[k].subtype= VPDQ; /* Product fixed quantitative * varying dummy */ + /* ncova++; /\* Varying variables with age *\/ */ + /* TvarV[ncova]=Tvar[k]; */ + /* TvarVind[ncova]=k; */ + }else if(Tvard[k1][2] <=ncovcol+nqv+ntv+nqtv){ /* Vm is time varying quanti */ + Fixed[k]= 3; + Dummy[k]= 2; + modell[k].maintype= VTYPE; + modell[k].subtype= VPQQ; /* Product fixed quantitative * varying quantitative */ + ncova++; /* Varying variables without age */ + TvarV[ncova]=Tvar[k]; + TvarVind[ncova]=k; + /* ncova++; /\* Varying variables without age *\/ */ + /* TvarV[ncova]=Tvar[k]; */ + /* TvarVind[ncova]=k; */ + } + }else if(Tvard[k1][1] <=ncovcol+nqv+ntv){ /* Vn is time varying dummy */ + if(Tvard[k1][2] <=ncovcol){ + Fixed[k]= 2; + Dummy[k]= 2; + modell[k].maintype= VTYPE; + modell[k].subtype= VPDD; /* Product time varying dummy * fixed dummy */ + /* ncova++; /\* Varying variables with age *\/ */ + /* TvarV[ncova]=Tvar[k]; */ + /* TvarVind[ncova]=k; */ + }else if(Tvard[k1][2] <=ncovcol+nqv){ + Fixed[k]= 2; + Dummy[k]= 3; + modell[k].maintype= VTYPE; + modell[k].subtype= VPDQ; /* Product time varying dummy * fixed quantitative */ + /* ncova++; /\* Varying variables with age *\/ */ + /* TvarV[ncova]=Tvar[k]; */ + /* TvarVind[ncova]=k; */ + }else if(Tvard[k1][2] <=ncovcol+nqv+ntv){ + Fixed[k]= 3; + Dummy[k]= 2; + modell[k].maintype= VTYPE; + modell[k].subtype= VPDD; /* Product time varying dummy * time varying dummy */ + /* ncova++; /\* Varying variables with age *\/ */ + /* TvarV[ncova]=Tvar[k]; */ + /* TvarVind[ncova]=k; */ + }else if(Tvard[k1][2] <=ncovcol+nqv+ntv+nqtv){ + Fixed[k]= 3; + Dummy[k]= 3; + modell[k].maintype= VTYPE; + modell[k].subtype= VPDQ; /* Product time varying dummy * time varying quantitative */ + /* ncova++; /\* Varying variables with age *\/ */ + /* TvarV[ncova]=Tvar[k]; */ + /* TvarVind[ncova]=k; */ + } + }else if(Tvard[k1][1] <=ncovcol+nqv+ntv+nqtv){ /* Vn is time varying quanti */ + if(Tvard[k1][2] <=ncovcol){ + Fixed[k]= 2; + Dummy[k]= 2; + modell[k].maintype= VTYPE; + modell[k].subtype= VPDQ; /* Product time varying quantitative * fixed dummy */ + /* ncova++; /\* Varying variables with age *\/ */ + /* TvarV[ncova]=Tvar[k]; */ + /* TvarVind[ncova]=k; */ + }else if(Tvard[k1][2] <=ncovcol+nqv){ + Fixed[k]= 2; + Dummy[k]= 3; + modell[k].maintype= VTYPE; + modell[k].subtype= VPQQ; /* Product time varying quantitative * fixed quantitative */ + /* ncova++; /\* Varying variables with age *\/ */ + /* TvarV[ncova]=Tvar[k]; */ + /* TvarVind[ncova]=k; */ + }else if(Tvard[k1][2] <=ncovcol+nqv+ntv){ + Fixed[k]= 3; + Dummy[k]= 2; + modell[k].maintype= VTYPE; + modell[k].subtype= VPDQ; /* Product time varying quantitative * time varying dummy */ + /* ncova++; /\* Varying variables with age *\/ */ + /* TvarV[ncova]=Tvar[k]; */ + /* TvarVind[ncova]=k; */ + }else if(Tvard[k1][2] <=ncovcol+nqv+ntv+nqtv){ + Fixed[k]= 3; + Dummy[k]= 3; + modell[k].maintype= VTYPE; + modell[k].subtype= VPQQ; /* Product time varying quantitative * time varying quantitative */ + /* ncova++; /\* Varying variables with age *\/ */ + /* TvarV[ncova]=Tvar[k]; */ + /* TvarVind[ncova]=k; */ + } + }else{ + printf("Error unknown type of covariate: Tvard[%d][1]=%d,Tvard[%d][2]=%d\n",k1,Tvard[k1][1],k1,Tvard[k1][2]); + fprintf(ficlog,"Error unknown type of covariate: Tvard[%d][1]=%d,Tvard[%d][2]=%d\n",k1,Tvard[k1][1],k1,Tvard[k1][2]); + } /*end k1*/ + } else{ + printf("Error, current version can't treat for performance reasons, Tvar[%d]=%d, Typevar[%d]=%d\n", k, Tvar[k], k, Typevar[k]); + fprintf(ficlog,"Error, current version can't treat for performance reasons, Tvar[%d]=%d, Typevar[%d]=%d\n", k, Tvar[k], k, Typevar[k]); + } + /* printf("Decodemodel, k=%d, Tvar[%d]=V%d,Typevar=%d, Fixed=%d, Dummy=%d\n",k, k,Tvar[k],Typevar[k],Fixed[k],Dummy[k]); */ + /* printf(" modell[%d].maintype=%d, modell[%d].subtype=%d\n",k,modell[k].maintype,k,modell[k].subtype); */ + fprintf(ficlog,"Decodemodel, k=%d, Tvar[%d]=V%d,Typevar=%d, Fixed=%d, Dummy=%d\n",k, k,Tvar[k],Typevar[k],Fixed[k],Dummy[k]); + } + ncovvta=ncovva; + /* Searching for doublons in the model */ + for(k1=1; k1<= cptcovt;k1++){ + for(k2=1; k2 +//#include +//#include +typedef BOOL(WINAPI *LPFN_ISWOW64PROCESS) (HANDLE, PBOOL); + +LPFN_ISWOW64PROCESS fnIsWow64Process; + +BOOL IsWow64() +{ + BOOL bIsWow64 = FALSE; + + //typedef BOOL (APIENTRY *LPFN_ISWOW64PROCESS) + // (HANDLE, PBOOL); + + //LPFN_ISWOW64PROCESS fnIsWow64Process; + + HMODULE module = GetModuleHandle(_T("kernel32")); + const char funcName[] = "IsWow64Process"; + fnIsWow64Process = (LPFN_ISWOW64PROCESS) + GetProcAddress(module, funcName); + + if (NULL != fnIsWow64Process) + { + if (!fnIsWow64Process(GetCurrentProcess(), + &bIsWow64)) + //throw std::exception("Unknown error"); + printf("Unknown error\n"); + } + return bIsWow64 != FALSE; +} +#endif + +void syscompilerinfo(int logged) +{ +#include + + /* #include "syscompilerinfo.h"*/ + /* command line Intel compiler 32bit windows, XP compatible:*/ + /* /GS /W3 /Gy + /Zc:wchar_t /Zi /O2 /Fd"Release\vc120.pdb" /D "WIN32" /D "NDEBUG" /D + "_CONSOLE" /D "_LIB" /D "_USING_V110_SDK71_" /D "_UNICODE" /D + "UNICODE" /Qipo /Zc:forScope /Gd /Oi /MT /Fa"Release\" /EHsc /nologo + /Fo"Release\" /Qprof-dir "Release\" /Fp"Release\IMaCh.pch" + */ + /* 64 bits */ + /* + /GS /W3 /Gy + /Zc:wchar_t /Zi /O2 /Fd"x64\Release\vc120.pdb" /D "WIN32" /D "NDEBUG" + /D "_CONSOLE" /D "_LIB" /D "_UNICODE" /D "UNICODE" /Qipo /Zc:forScope + /Oi /MD /Fa"x64\Release\" /EHsc /nologo /Fo"x64\Release\" /Qprof-dir + "x64\Release\" /Fp"x64\Release\IMaCh.pch" */ + /* Optimization are useless and O3 is slower than O2 */ + /* + /GS /W3 /Gy /Zc:wchar_t /Zi /O3 /Fd"x64\Release\vc120.pdb" /D "WIN32" + /D "NDEBUG" /D "_CONSOLE" /D "_LIB" /D "_UNICODE" /D "UNICODE" /Qipo + /Zc:forScope /Oi /MD /Fa"x64\Release\" /EHsc /nologo /Qparallel + /Fo"x64\Release\" /Qprof-dir "x64\Release\" /Fp"x64\Release\IMaCh.pch" + */ + /* Link is */ /* /OUT:"visual studio + 2013\Projects\IMaCh\Release\IMaCh.exe" /MANIFEST /NXCOMPAT + /PDB:"visual studio + 2013\Projects\IMaCh\Release\IMaCh.pdb" /DYNAMICBASE + "kernel32.lib" "user32.lib" "gdi32.lib" "winspool.lib" + "comdlg32.lib" "advapi32.lib" "shell32.lib" "ole32.lib" + "oleaut32.lib" "uuid.lib" "odbc32.lib" "odbccp32.lib" + /MACHINE:X86 /OPT:REF /SAFESEH /INCREMENTAL:NO + /SUBSYSTEM:CONSOLE",5.01" /MANIFESTUAC:"level='asInvoker' + uiAccess='false'" + /ManifestFile:"Release\IMaCh.exe.intermediate.manifest" /OPT:ICF + /NOLOGO /TLBID:1 + */ + + +#if defined __INTEL_COMPILER +#if defined(__GNUC__) + struct utsname sysInfo; /* For Intel on Linux and OS/X */ +#endif +#elif defined(__GNUC__) +#ifndef __APPLE__ +#include /* Only on gnu */ +#endif + struct utsname sysInfo; + int cross = CROSS; + if (cross){ + printf("Cross-"); + if(logged) fprintf(ficlog, "Cross-"); + } +#endif + + printf("Compiled with:");if(logged)fprintf(ficlog,"Compiled with:"); +#if defined(__clang__) + printf(" Clang/LLVM");if(logged)fprintf(ficlog," Clang/LLVM"); /* Clang/LLVM. ---------------------------------------------- */ +#endif +#if defined(__ICC) || defined(__INTEL_COMPILER) + printf(" Intel ICC/ICPC");if(logged)fprintf(ficlog," Intel ICC/ICPC");/* Intel ICC/ICPC. ------------------------------------------ */ +#endif +#if defined(__GNUC__) || defined(__GNUG__) + printf(" GNU GCC/G++");if(logged)fprintf(ficlog," GNU GCC/G++");/* GNU GCC/G++. --------------------------------------------- */ +#endif +#if defined(__HP_cc) || defined(__HP_aCC) + printf(" Hewlett-Packard C/aC++");if(logged)fprintf(fcilog," Hewlett-Packard C/aC++"); /* Hewlett-Packard C/aC++. ---------------------------------- */ +#endif +#if defined(__IBMC__) || defined(__IBMCPP__) + printf(" IBM XL C/C++"); if(logged) fprintf(ficlog," IBM XL C/C++");/* IBM XL C/C++. -------------------------------------------- */ +#endif +#if defined(_MSC_VER) + printf(" Microsoft Visual Studio");if(logged)fprintf(ficlog," Microsoft Visual Studio");/* Microsoft Visual Studio. --------------------------------- */ +#endif +#if defined(__PGI) + printf(" Portland Group PGCC/PGCPP");if(logged) fprintf(ficlog," Portland Group PGCC/PGCPP");/* Portland Group PGCC/PGCPP. ------------------------------- */ +#endif +#if defined(__SUNPRO_C) || defined(__SUNPRO_CC) + printf(" Oracle Solaris Studio");if(logged)fprintf(ficlog," Oracle Solaris Studio\n");/* Oracle Solaris Studio. ----------------------------------- */ +#endif + printf(" for "); if (logged) fprintf(ficlog, " for "); + +// http://stackoverflow.com/questions/4605842/how-to-identify-platform-compiler-from-preprocessor-macros +#ifdef _WIN32 // note the underscore: without it, it's not msdn official! + // Windows (x64 and x86) + printf("Windows (x64 and x86) ");if(logged) fprintf(ficlog,"Windows (x64 and x86) "); +#elif __unix__ // all unices, not all compilers + // Unix + printf("Unix ");if(logged) fprintf(ficlog,"Unix "); +#elif __linux__ + // linux + printf("linux ");if(logged) fprintf(ficlog,"linux "); +#elif __APPLE__ + // Mac OS, not sure if this is covered by __posix__ and/or __unix__ though.. + printf("Mac OS ");if(logged) fprintf(ficlog,"Mac OS "); +#endif + +/* __MINGW32__ */ +/* __CYGWIN__ */ +/* __MINGW64__ */ +// http://msdn.microsoft.com/en-us/library/b0084kay.aspx +/* _MSC_VER //the Visual C++ compiler is 17.00.51106.1, the _MSC_VER macro evaluates to 1700. Type cl /? */ +/* _MSC_FULL_VER //the Visual C++ compiler is 15.00.20706.01, the _MSC_FULL_VER macro evaluates to 150020706 */ +/* _WIN64 // Defined for applications for Win64. */ +/* _M_X64 // Defined for compilations that target x64 processors. */ +/* _DEBUG // Defined when you compile with /LDd, /MDd, and /MTd. */ + +#if UINTPTR_MAX == 0xffffffff + printf(" 32-bit"); if(logged) fprintf(ficlog," 32-bit");/* 32-bit */ +#elif UINTPTR_MAX == 0xffffffffffffffff + printf(" 64-bit"); if(logged) fprintf(ficlog," 64-bit");/* 64-bit */ +#else + printf(" wtf-bit"); if(logged) fprintf(ficlog," wtf-bit");/* wtf */ +#endif + +#if defined(__GNUC__) +# if defined(__GNUC_PATCHLEVEL__) +# define __GNUC_VERSION__ (__GNUC__ * 10000 \ + + __GNUC_MINOR__ * 100 \ + + __GNUC_PATCHLEVEL__) +# else +# define __GNUC_VERSION__ (__GNUC__ * 10000 \ + + __GNUC_MINOR__ * 100) +# endif + printf(" using GNU C version %d.\n", __GNUC_VERSION__); + if(logged) fprintf(ficlog, " using GNU C version %d.\n", __GNUC_VERSION__); + + if (uname(&sysInfo) != -1) { + printf("Running on: %s %s %s %s %s\n",sysInfo.sysname, sysInfo.nodename, sysInfo.release, sysInfo.version, sysInfo.machine); + if(logged) fprintf(ficlog,"Running on: %s %s %s %s %s\n ",sysInfo.sysname, sysInfo.nodename, sysInfo.release, sysInfo.version, sysInfo.machine); + } + else + perror("uname() error"); + //#ifndef __INTEL_COMPILER +#if !defined (__INTEL_COMPILER) && !defined(__APPLE__) + printf("GNU libc version: %s\n", gnu_get_libc_version()); + if(logged) fprintf(ficlog,"GNU libc version: %s\n", gnu_get_libc_version()); +#endif +#endif + + // void main () + // { +#if defined(_MSC_VER) + if (IsWow64()){ + printf("\nThe program (probably compiled for 32bit) is running under WOW64 (64bit) emulation.\n"); + if (logged) fprintf(ficlog, "\nThe program (probably compiled for 32bit) is running under WOW64 (64bit) emulation.\n"); + } + else{ + printf("\nThe program is not running under WOW64 (i.e probably on a 64bit Windows).\n"); + if (logged) fprintf(ficlog, "\nThe programm is not running under WOW64 (i.e probably on a 64bit Windows).\n"); + } + // printf("\nPress Enter to continue..."); + // getchar(); + // } + +#endif + + +} + +int prevalence_limit(double *p, double **prlim, double ageminpar, double agemaxpar, double ftolpl, int *ncvyearp){ + /*--------------- Prevalence limit (forward period or forward stable prevalence) --------------*/ + /* Computes the prevalence limit for each combination of the dummy covariates */ + int i, j, k, i1, k4=0, nres=0 ; + /* double ftolpl = 1.e-10; */ + double age, agebase, agelim; + double tot; + + strcpy(filerespl,"PL_"); + strcat(filerespl,fileresu); + if((ficrespl=fopen(filerespl,"w"))==NULL) { + printf("Problem with forward period (stable) prevalence resultfile: %s\n", filerespl);return 1; + fprintf(ficlog,"Problem with forward period (stable) prevalence resultfile: %s\n", filerespl);return 1; + } + printf("\nComputing forward period (stable) prevalence: result on file '%s' \n", filerespl); + fprintf(ficlog,"\nComputing forward period (stable) prevalence: result on file '%s' \n", filerespl); + pstamp(ficrespl); + fprintf(ficrespl,"# Forward period (stable) prevalence. Precision given by ftolpl=%g \n", ftolpl); + fprintf(ficrespl,"#Age "); + for(i=1; i<=nlstate;i++) fprintf(ficrespl,"%d-%d ",i,i); + fprintf(ficrespl,"\n"); + + /* prlim=matrix(1,nlstate,1,nlstate);*/ /* back in main */ + + agebase=ageminpar; + agelim=agemaxpar; + + /* i1=pow(2,ncoveff); */ + i1=pow(2,cptcoveff); /* Number of combination of dummy covariates */ + if (cptcovn < 1){i1=1;} + + /* for(k=1; k<=i1;k++){ /\* For each combination k of dummy covariates in the model *\/ */ + for(nres=1; nres <= nresult; nres++){ /* For each resultline */ + k=TKresult[nres]; + if(TKresult[nres]==0) k=1; /* To be checked for noresult */ + /* if(i1 != 1 && TKresult[nres]!= k) /\* We found the combination k corresponding to the resultline value of dummies *\/ */ + /* continue; */ + + /* for(cptcov=1,k=0;cptcov<=i1;cptcov++){ */ + /* for(cptcov=1,k=0;cptcov<=1;cptcov++){ */ + //for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){ + /* k=k+1; */ + /* to clean */ + /*printf("cptcov=%d cptcod=%d codtab=%d\n",cptcov, cptcod,codtabm(cptcod,cptcov));*/ + fprintf(ficrespl,"#******"); + printf("#******"); + fprintf(ficlog,"#******"); + for(j=1;j<=cptcovs ;j++) {/**< cptcovs number of SIMPLE covariates in the model or resultline V2+V1 =2 (dummy or quantit or time varying) */ + /* fprintf(ficrespl," V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,Tvaraff[j])]); /\* Here problem for varying dummy*\/ */ + /* printf(" V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,TnsdVar[Tvaraff[j]])]); */ + /* fprintf(ficlog," V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,TnsdVar[Tvaraff[j]])]); */ + fprintf(ficrespl," V%d=%lg ",Tvresult[nres][j],TinvDoQresult[nres][Tvresult[nres][j]]); + printf(" V%d=%lg ",Tvresult[nres][j],TinvDoQresult[nres][Tvresult[nres][j]]); + fprintf(ficlog," V%d=%lg ",Tvresult[nres][j],TinvDoQresult[nres][Tvresult[nres][j]]); + } + /* for (k4=1; k4<= nsq; k4++){ /\* For each selected (single) quantitative value *\/ */ + /* printf(" V%d=%f ",Tvqresult[nres][k4],Tqresult[nres][k4]); */ + /* fprintf(ficrespl," V%d=%f ",Tvqresult[nres][k4],Tqresult[nres][k4]); */ + /* fprintf(ficlog," V%d=%f ",Tvqresult[nres][k4],Tqresult[nres][k4]); */ + /* } */ + fprintf(ficrespl,"******\n"); + printf("******\n"); + fprintf(ficlog,"******\n"); + if(invalidvarcomb[k]){ + printf("\nCombination (%d) ignored because no case \n",k); + fprintf(ficrespl,"#Combination (%d) ignored because no case \n",k); + fprintf(ficlog,"\nCombination (%d) ignored because no case \n",k); + continue; } - } - } - /*for (i=1; i<=imx; i++){ - for (m=firstpass; (m IMaCh Cov %s \n %s
%s \
\n\ -Title=%s
Datafile=%s Firstpass=%d Lastpass=%d Stepm=%d Weight=%d Model=%s
\n",\ +Title=%s
Datafile=%s Firstpass=%d Lastpass=%d Stepm=%d Weight=%d Model=1+age+%s
\n",\ optionfilehtmcov,version,fullversion,title,datafile,firstpass,lastpass,stepm, weightopt, model); } - fprintf(fichtm,"\nIMaCh %s \n %s
%s \ + fprintf(fichtm,"\n\n\ +IMaCh %s \n\ + IMaCh for Interpolated Markov Chain
\n\ +Sponsored by Copyright (C) 2002-2015 INED\ +-EUROREVES-Institut de longévité-2013-2022-Japan Society for the Promotion of Sciences 日本学術振興会 \ +(Grant-in-Aid for Scientific Research 25293121) - \ +Intel Software 2015-2018
\n", optionfilehtm); + + fprintf(fichtm,"
\n\ +IMaCh-%s
%s \
\n\ -Title=%s
Datafile=%s Firstpass=%d Lastpass=%d Stepm=%d Weight=%d Model=%s
\n\ +This file: %sTitle=%s
Datafile=%s Firstpass=%d Lastpass=%d Stepm=%d Weight=%d Model=1+age+%s
\n\ \n\
\Parameter files
\n\ @@ -5829,7 +15597,7 @@ Title=%s
Datafile=%s Firstpass=%d La - Log file of the run: %s
\n\ - Gnuplot file name: %s
\n\ - Date and time at start: %s
Datafile=%s Firstpass=%d La strcpy(pathr,path); strcat(pathr,optionfilefiname); +#ifdef WIN32 + _chdir(optionfilefiname); /* Move to directory named optionfile */ +#else chdir(optionfilefiname); /* Move to directory named optionfile */ +#endif + - /* Calculates basic frequencies. Computes observed prevalence at single age + /* Calculates basic frequencies. Computes observed prevalence at single age + and for any valid combination of covariates and prints on file fileres'p'. */ - freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvaraff,nbcode, ncodemax,mint,anint,strstart); + freqsummary(fileres, p, pstart, (double)agemin, agemax, s, agev, nlstate, imx, Tvaraff, invalidvarcomb, nbcode, ncodemax,mint,anint,strstart, \ + firstpass, lastpass, stepm, weightopt, model); fprintf(fichtm,"\n"); - fprintf(fichtm,"
Total number of observations=%d
\n\ + fprintf(fichtm,"Parameter line 2
- Tolerance for the convergence of the likelihood: ftol=%g \n
- Interval for the elementary matrix (in month): stepm=%d",\ + ftol, stepm); + fprintf(fichtm,"\n
- Number of fixed dummy covariates: ncovcol=%d ", ncovcol); + ncurrv=1; + for(i=ncurrv; i <=ncovcol; i++) fprintf(fichtm,"V%d ", i); + fprintf(fichtm,"\n
- Number of fixed quantitative variables: nqv=%d ", nqv); + ncurrv=i; + for(i=ncurrv; i <=ncurrv-1+nqv; i++) fprintf(fichtm,"V%d ", i); + fprintf(fichtm,"\n
- Number of time varying (wave varying) dummy covariates: ntv=%d ", ntv); + ncurrv=i; + for(i=ncurrv; i <=ncurrv-1+ntv; i++) fprintf(fichtm,"V%d ", i); + fprintf(fichtm,"\n
- Number of time varying quantitative covariates: nqtv=%d ", nqtv); + ncurrv=i; + for(i=ncurrv; i <=ncurrv-1+nqtv; i++) fprintf(fichtm,"V%d ", i); + fprintf(fichtm,"\n
- Weights column \n
Number of alive states: nlstate=%d
Number of death states (not really implemented): ndeath=%d \n - Number of waves: maxwav=%d \n
- Parameter for maximization (1), using parameter values (0), for design of parameters and variance-covariance matrix: mle=%d \n
- Does the weight column be taken into account (1), or not (0): weight=%d
Diagram of states %s_.svg
\n\ +![](\"%s_.svg\")
", subdirf2(optionfilefiname,"D_"),subdirf2(optionfilefiname,"D_"),subdirf2(optionfilefiname,"D_"));
+
+
+ fprintf(fichtm,"\nSome descriptive statistics
\n
Number of (used) observations=%d
\n\ Youngest age at first (selected) pass %.2f, oldest age %.2f
\n\ Interval (in months) between two waves: Min=%d Max=%d Mean=%.2lf
\n",\ - imx,agemin,agemax,jmin,jmax,jmean); + imx,agemin,agemax,jmin,jmax,jmean); pmmij= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */ - oldms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */ - newms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */ - savms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */ - oldm=oldms; newm=newms; savm=savms; /* Keeps fixed addresses to free */ - - + oldms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */ + newms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */ + savms= matrix(1,nlstate+ndeath,1,nlstate+ndeath); /* creation */ + oldm=oldms; newm=newms; savm=savms; /* Keeps fixed addresses to free */ + /* For Powell, parameters are in a vector p[] starting at p[1] so we point p on param[1][1] so that p[1] maps on param[1][1][1] */ p=param[1][1]; /* *(*(*(param +1)+1)+0) */ globpr=0; /* To get the number ipmx of contributions and the sum of weights*/ - + /* For mortality only */ if (mle==-3){ ximort=matrix(1,NDIM,1,NDIM); -/* ximort=gsl_matrix_alloc(1,NDIM,1,NDIM); */ - cens=ivector(1,n); - ageexmed=vector(1,n); - agecens=vector(1,n); - dcwave=ivector(1,n); - + for(i=1;i<=NDIM;i++) + for(j=1;j<=NDIM;j++) + ximort[i][j]=0.; + /* ximort=gsl_matrix_alloc(1,NDIM,1,NDIM); */ + cens=ivector(firstobs,lastobs); + ageexmed=vector(firstobs,lastobs); + agecens=vector(firstobs,lastobs); + dcwave=ivector(firstobs,lastobs); + for (i=1; i<=imx; i++){ dcwave[i]=-1; for (m=firstpass; m<=lastpass; m++) @@ -5878,13 +15676,13 @@ Interval (in months) between two waves: break; } } - + for (i=1; i<=imx; i++) { if (wav[i]>0){ ageexmed[i]=agev[mw[1][i]][i]; j=wav[i]; agecens[i]=1.; - + if (ageexmed[i]> 1 && wav[i] > 0){ agecens[i]=agev[mw[j][i]][i]; cens[i]= 1; @@ -5901,24 +15699,24 @@ Interval (in months) between two waves: ximort[i][j]=(i == j ? 1.0 : 0.0); } - /*p[1]=0.0268; p[NDIM]=0.083;*/ - /*printf("%lf %lf", p[1], p[2]);*/ + p[1]=0.0268; p[NDIM]=0.083; + /* printf("%lf %lf", p[1], p[2]); */ #ifdef GSL printf("GSL optimization\n"); fprintf(ficlog,"Powell\n"); -#elsedef - printf("Powell\n"); fprintf(ficlog,"Powell\n"); +#else + printf("Powell-mort\n"); fprintf(ficlog,"Powell-mort\n"); #endif - strcpy(filerespow,"pow-mort"); - strcat(filerespow,fileres); + strcpy(filerespow,"POW-MORT_"); + strcat(filerespow,fileresu); if((ficrespow=fopen(filerespow,"w"))==NULL) { printf("Problem with resultfile: %s\n", filerespow); fprintf(ficlog,"Problem with resultfile: %s\n", filerespow); } #ifdef GSL fprintf(ficrespow,"# GSL optimization\n# iter -2*LL"); -#elsedef +#else fprintf(ficrespow,"# Powell\n# iter -2*LL"); #endif /* for (i=1;i<=nlstate;i++) @@ -5953,8 +15751,8 @@ Interval (in months) between two waves: /* Initialize method and iterate */ /* p[1]=0.0268; p[NDIM]=0.083; */ -/* gsl_vector_set(x, 0, 0.0268); */ -/* gsl_vector_set(x, 1, 0.083); */ + /* gsl_vector_set(x, 0, 0.0268); */ + /* gsl_vector_set(x, 1, 0.083); */ gsl_vector_set(x, 0, p[1]); gsl_vector_set(x, 1, p[2]); @@ -6007,27 +15805,30 @@ Interval (in months) between two waves: #endif fclose(ficrespow); - hesscov(matcov, p, NDIM, delti, 1e-4, gompertz); + hesscov(matcov, hess, p, NDIM, delti, 1e-4, gompertz); for(i=1; i <=NDIM; i++) for(j=i+1;j<=NDIM;j++) matcov[i][j]=matcov[j][i]; printf("\nCovariance matrix\n "); + fprintf(ficlog,"\nCovariance matrix\n "); for(i=1; i <=NDIM; i++) { for(j=1;j<=NDIM;j++){ - printf("%f ",matcov[i][j]); + printf("%f ",matcov[i][j]); + fprintf(ficlog,"%f ",matcov[i][j]); } - printf("\n "); + printf("\n "); fprintf(ficlog,"\n "); } printf("iter=%d MLE=%f Eq=%lf*exp(%lf*(age-%d))\n",iter,-gompertz(p),p[1],p[2],agegomp); - for (i=1;i<=NDIM;i++) + for (i=1;i<=NDIM;i++) { printf("%f [%f ; %f]\n",p[i],p[i]-2*sqrt(matcov[i][i]),p[i]+2*sqrt(matcov[i][i])); - - lsurv=vector(1,AGESUP); - lpop=vector(1,AGESUP); - tpop=vector(1,AGESUP); + fprintf(ficlog,"%f [%f ; %f]\n",p[i],p[i]-2*sqrt(matcov[i][i]),p[i]+2*sqrt(matcov[i][i])); + } + lsurv=vector(agegomp,AGESUP); + lpop=vector(agegomp,AGESUP); + tpop=vector(agegomp,AGESUP); lsurv[agegomp]=100000; for (k=agegomp;k<=AGESUP;k++) { @@ -6056,70 +15857,203 @@ Interval (in months) between two waves: replace_back_to_slash(pathc,pathcd); /* Even gnuplot wants a / */ - printinggnuplotmort(fileres, optionfilefiname,ageminpar,agemaxpar,fage, pathc,p); - - printinghtmlmort(fileres,title,datafile, firstpass, lastpass, \ + ageminpar=50; + agemaxpar=100; + if(ageminpar == AGEOVERFLOW ||agemaxpar == AGEOVERFLOW){ + printf("Warning! Error in gnuplot file with ageminpar %f or agemaxpar %f overflow\n\ +This is probably because your parameter file doesn't \n contain the exact number of lines (or columns) corresponding to your model line.\n\ +Please run with mle=-1 to get a correct covariance matrix.\n",ageminpar,agemaxpar); + fprintf(ficlog,"Warning! Error in gnuplot file with ageminpar %f or agemaxpar %f overflow\n\ +This is probably because your parameter file doesn't \n contain the exact number of lines (or columns) corresponding to your model line.\n\ +Please run with mle=-1 to get a correct covariance matrix.\n",ageminpar,agemaxpar); + }else{ + printf("Warning! ageminpar %f and agemaxpar %f have been fixed because for simplification until it is fixed...\n\n",ageminpar,agemaxpar); + fprintf(ficlog,"Warning! ageminpar %f and agemaxpar %f have been fixed because for simplification until it is fixed...\n\n",ageminpar,agemaxpar); + printinggnuplotmort(fileresu, optionfilefiname,ageminpar,agemaxpar,fage, pathc,p); + } + printinghtmlmort(fileresu,title,datafile, firstpass, lastpass, \ stepm, weightopt,\ model,imx,p,matcov,agemortsup); - free_vector(lsurv,1,AGESUP); - free_vector(lpop,1,AGESUP); - free_vector(tpop,1,AGESUP); -#ifdef GSL - free_ivector(cens,1,n); - free_vector(agecens,1,n); - free_ivector(dcwave,1,n); + free_vector(lsurv,agegomp,AGESUP); + free_vector(lpop,agegomp,AGESUP); + free_vector(tpop,agegomp,AGESUP); free_matrix(ximort,1,NDIM,1,NDIM); + free_ivector(dcwave,firstobs,lastobs); + free_vector(agecens,firstobs,lastobs); + free_vector(ageexmed,firstobs,lastobs); + free_ivector(cens,firstobs,lastobs); +#ifdef GSL #endif - } /* Endof if mle==-3 */ - - else{ /* For mle >=1 */ - globpr=0;/* debug */ + } /* Endof if mle==-3 mortality only */ + /* Standard */ + else{ /* For mle !=- 3, could be 0 or 1 or 4 etc. */ + globpr=0;/* Computes sum of likelihood for globpr=1 and funcone */ + /* Computes likelihood for initial parameters, uses funcone to compute gpimx and gsw */ likelione(ficres, p, npar, nlstate, &globpr, &ipmx, &sw, &fretone, funcone); /* Prints the contributions to the likelihood */ printf("First Likeli=%12.6f ipmx=%ld sw=%12.6f",fretone,ipmx,sw); for (k=1; k<=npar;k++) printf(" %d %8.5f",k,p[k]); printf("\n"); - globpr=1; /* to print the contributions */ + if(mle>=1){ /* Could be 1 or 2, Real Maximization */ + /* mlikeli uses func not funcone */ + /* for(i=1;i- model=1+age+%s\n \ +
\n"); + fprintf(fichtm, "
\n"); + fprintf(fichtm, "\n"); + + if(mle != 0){ + /* Computing hessian and covariance matrix only at a peak of the Likelihood, that is after optimization */ ftolhess=ftol; /* Usually correct */ - hesscov(matcov, p, npar, delti, ftolhess, func); - } + hesscov(matcov, hess, p, npar, delti, ftolhess, func); + printf("Parameters and 95%% confidence intervals\n W is simply the result of the division of the parameter by the square root of covariance of the parameter.\n And Wald-based confidence intervals plus and minus 1.96 * W .\n But be careful that parameters are highly correlated because incidence of disability is highly correlated to incidence of recovery.\n It might be better to visualize the covariance matrix. See the page 'Matrix of variance-covariance of one-step probabilities' and its graphs.\n"); + fprintf(ficlog, "Parameters, Wald tests and Wald-based confidence intervals\n W is simply the result of the division of the parameter by the square root of covariance of the parameter.\n And Wald-based confidence intervals plus and minus 1.96 * W \n It might be better to visualize the covariance matrix. See the page 'Matrix of variance-covariance of one-step probabilities' and its graphs.\n"); + fprintf(fichtm, "\nModel= 1 + age "); + if(nagesqr==1){ + printf(" + age*age "); + fprintf(ficres," + age*age "); + fprintf(ficlog," + age*age "); + fprintf(fichtm, "+ age*age "); + } + for(j=1;j <=ncovmodel-2;j++){ + if(Typevar[j]==0) { + printf(" + V%d ",Tvar[j]); + fprintf(ficres," + V%d ",Tvar[j]); + fprintf(ficlog," + V%d ",Tvar[j]); + fprintf(fichtm, "+ V%d ",Tvar[j]); + }else if(Typevar[j]==1) { + printf(" + V%d*age ",Tvar[j]); + fprintf(ficres," + V%d*age ",Tvar[j]); + fprintf(ficlog," + V%d*age ",Tvar[j]); + fprintf(fichtm, "+ V%d*age ",Tvar[j]); + }else if(Typevar[j]==2) { + printf(" + V%d*V%d ",Tvard[Tposprod[j]][1],Tvard[Tposprod[j]][2]); + fprintf(ficres," + V%d*V%d ",Tvard[Tposprod[j]][1],Tvard[Tposprod[j]][2]); + fprintf(ficlog," + V%d*V%d ",Tvard[Tposprod[j]][1],Tvard[Tposprod[j]][2]); + fprintf(fichtm, "+ V%d*V%d ",Tvard[Tposprod[j]][1],Tvard[Tposprod[j]][2]); + }else if(Typevar[j]==3) { /* TO VERIFY */ + printf(" + V%d*V%d*age ",Tvard[Tposprod[j]][1],Tvard[Tposprod[j]][2]); + fprintf(ficres," + V%d*V%d*age ",Tvard[Tposprod[j]][1],Tvard[Tposprod[j]][2]); + fprintf(ficlog," + V%d*V%d*age ",Tvard[Tposprod[j]][1],Tvard[Tposprod[j]][2]); + fprintf(fichtm, "+ V%d*V%d*age ",Tvard[Tposprod[j]][1],Tvard[Tposprod[j]][2]); + } + } + printf("\n"); + fprintf(ficres,"\n"); + fprintf(ficlog,"\n"); + fprintf(fichtm, ""); printf("%d%d ",i,k); fprintf(ficlog,"%d%d ",i,k); fprintf(ficres,"%1d%1d ",i,k); + fprintf(fichtm, " \n"); } } } - if(mle!=0){ - /* Computing hessian and covariance matrix */ + /* fprintf(fichtm,"\n"); */ + fprintf(fichtm,"%1d%1d ",i,k); for(j=1; j <=ncovmodel; j++){ - printf("%lf ",p[jk]); - fprintf(ficlog,"%lf ",p[jk]); - fprintf(ficres,"%lf ",p[jk]); + printf("%12.7f ",p[jk]); + fprintf(ficlog,"%12.7f ",p[jk]); + fprintf(ficres,"%12.7f ",p[jk]); + fprintf(fichtm, "%12.7f ",p[jk]); jk++; } printf("\n"); fprintf(ficlog,"\n"); fprintf(ficres,"\n"); + fprintf(fichtm, "The Wald test results are output only if the maximimzation of the Likelihood is performed (mle=1)\nParameters, Wald tests and Wald-based confidence intervals\n W is simply the result of the division of the parameter by the square root of covariance of the parameter.\n And Wald-based confidence intervals plus and minus 1.96 * W \n It might be better to visualize the covariance matrix. See the page 'Matrix of variance-covariance of one-step probabilities and its graphs'.\n",optionfilehtmcov); + fprintf(fichtm,"\n
"); + fprintf(fichtm, "\n
\n"); + + /* */ fprintf(ficres,"# Scales (for hessian or gradient estimation)\n"); printf("# Scales (for hessian or gradient estimation)\n"); fprintf(ficlog,"# Scales (for hessian or gradient estimation)\n"); @@ -6143,7 +16077,7 @@ Interval (in months) between two waves: } fprintf(ficres,"# Covariance matrix \n# 121 Var(a12)\n# 122 Cov(b12,a12) Var(b12)\n# ...\n# 232 Cov(b23,a12) Cov(b23,b12) ... Var (b23)\n"); - if(mle>=1) + if(mle >= 1) /* Too big for the screen */ printf("# Covariance matrix \n# 121 Var(a12)\n# 122 Cov(b12,a12) Var(b12)\n# ...\n# 232 Cov(b23,a12) Cov(b23,b12) ... Var (b23)\n"); fprintf(ficlog,"# Covariance matrix \n# 121 Var(a12)\n# 122 Cov(b12,a12) Var(b12)\n# ...\n# 232 Cov(b23,a12) Cov(b23,b12) ... Var (b23)\n"); /* # 121 Var(a12)\n\ */ @@ -6206,9 +16140,9 @@ Interval (in months) between two waves: fprintf(ficres," Var(%s%1d%1d)",ca,i,j); }else{ if(mle>=1) - printf(" %.5e",matcov[jj][ll]); - fprintf(ficlog," %.5e",matcov[jj][ll]); - fprintf(ficres," %.5e",matcov[jj][ll]); + printf(" %.7e",matcov[jj][ll]); + fprintf(ficlog," %.7e",matcov[jj][ll]); + fprintf(ficres," %.7e",matcov[jj][ll]); } } } @@ -6227,17 +16161,41 @@ Interval (in months) between two waves: fflush(ficlog); fflush(ficres); - - while((c=getc(ficpar))=='#' && c!= EOF){ - ungetc(c,ficpar); - fgets(line, MAXLINE, ficpar); - fputs(line,stdout); - fputs(line,ficparo); + while(fgets(line, MAXLINE, ficpar)) { + /* If line starts with a # it is a comment */ + if (line[0] == '#') { + numlinepar++; + fputs(line,stdout); + fputs(line,ficparo); + fputs(line,ficlog); + fputs(line,ficres); + continue; + }else + break; } - ungetc(c,ficpar); + + /* while((c=getc(ficpar))=='#' && c!= EOF){ */ + /* ungetc(c,ficpar); */ + /* fgets(line, MAXLINE, ficpar); */ + /* fputs(line,stdout); */ + /* fputs(line,ficparo); */ + /* } */ + /* ungetc(c,ficpar); */ estepm=0; - fscanf(ficpar,"agemin=%lf agemax=%lf bage=%lf fage=%lf estepm=%d\n",&ageminpar,&agemaxpar, &bage, &fage, &estepm); + if((num_filled=sscanf(line,"agemin=%lf agemax=%lf bage=%lf fage=%lf estepm=%d ftolpl=%lf\n",&ageminpar,&agemaxpar, &bage, &fage, &estepm, &ftolpl)) !=EOF){ + + if (num_filled != 6) { + printf("Error: Not 6 parameters in line, for example:agemin=60 agemax=95 bage=55 fage=95 estepm=24 ftolpl=6e-4\n, your line=%s . Probably you are running an older format.\n",line); + fprintf(ficlog,"Error: Not 6 parameters in line, for example:agemin=60 agemax=95 bage=55 fage=95 estepm=24 ftolpl=6e-4\n, your line=%s . Probably you are running an older format.\n",line); + goto end; + } + printf("agemin=%lf agemax=%lf bage=%lf fage=%lf estepm=%d ftolpl=%lf\n",ageminpar,agemaxpar, bage, fage, estepm, ftolpl); + } + /* ftolpl=6*ftol*1.e5; /\* 6.e-3 make convergences in less than 80 loops for the prevalence limit *\/ */ + /*ftolpl=6.e-4;*/ /* 6.e-3 make convergences in less than 80 loops for the prevalence limit */ + + /* fscanf(ficpar,"agemin=%lf agemax=%lf bage=%lf fage=%lf estepm=%d ftolpl=%\n",&ageminpar,&agemaxpar, &bage, &fage, &estepm); */ if (estepm==0 || estepm < stepm) estepm=stepm; if (fage <= 2) { bage = ageminpar; @@ -6245,378 +16203,770 @@ Interval (in months) between two waves: } fprintf(ficres,"# agemin agemax for life expectancy, bage fage (if mle==0 ie no data nor Max likelihood).\n"); - fprintf(ficres,"agemin=%.0f agemax=%.0f bage=%.0f fage=%.0f estepm=%d\n",ageminpar,agemaxpar,bage,fage, estepm); - fprintf(ficparo,"agemin=%.0f agemax=%.0f bage=%.0f fage=%.0f estepm=%d\n",ageminpar,agemaxpar,bage,fage, estepm); - - while((c=getc(ficpar))=='#' && c!= EOF){ - ungetc(c,ficpar); - fgets(line, MAXLINE, ficpar); - fputs(line,stdout); - fputs(line,ficparo); + fprintf(ficres,"agemin=%.0f agemax=%.0f bage=%.0f fage=%.0f estepm=%d ftolpl=%e\n",ageminpar,agemaxpar,bage,fage, estepm, ftolpl); + fprintf(ficparo,"agemin=%.0f agemax=%.0f bage=%.0f fage=%.0f estepm=%d, ftolpl=%e\n",ageminpar,agemaxpar,bage,fage, estepm, ftolpl); + + /* Other stuffs, more or less useful */ + while(fgets(line, MAXLINE, ficpar)) { + /* If line starts with a # it is a comment */ + if (line[0] == '#') { + numlinepar++; + fputs(line,stdout); + fputs(line,ficparo); + fputs(line,ficlog); + fputs(line,ficres); + continue; + }else + break; } - ungetc(c,ficpar); - - fscanf(ficpar,"begin-prev-date=%lf/%lf/%lf end-prev-date=%lf/%lf/%lf mov_average=%d\n",&jprev1, &mprev1,&anprev1,&jprev2, &mprev2,&anprev2,&mobilav); - fprintf(ficparo,"begin-prev-date=%.lf/%.lf/%.lf end-prev-date=%.lf/%.lf/%.lf mov_average=%d\n",jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,mobilav); - fprintf(ficres,"begin-prev-date=%.lf/%.lf/%.lf end-prev-date=%.lf/%.lf/%.lf mov_average=%d\n",jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,mobilav); - printf("begin-prev-date=%.lf/%.lf/%.lf end-prev-date=%.lf/%.lf/%.lf mov_average=%d\n",jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,mobilav); - fprintf(ficlog,"begin-prev-date=%.lf/%.lf/%.lf end-prev-date=%.lf/%.lf/%.lf mov_average=%d\n",jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,mobilav); - - while((c=getc(ficpar))=='#' && c!= EOF){ - ungetc(c,ficpar); - fgets(line, MAXLINE, ficpar); - fputs(line,stdout); - fputs(line,ficparo); + + if((num_filled=sscanf(line,"begin-prev-date=%lf/%lf/%lf end-prev-date=%lf/%lf/%lf mov_average=%d\n",&jprev1, &mprev1,&anprev1,&jprev2, &mprev2,&anprev2,&mobilav)) !=EOF){ + + if (num_filled != 7) { + printf("Error: Not 7 (data)parameters in line but %d, for example:begin-prev-date=1/1/1990 end-prev-date=1/6/2004 mov_average=0\n, your line=%s . Probably you are running an older format.\n",num_filled,line); + fprintf(ficlog,"Error: Not 7 (data)parameters in line but %d, for example:begin-prev-date=1/1/1990 end-prev-date=1/6/2004 mov_average=0\n, your line=%s . Probably you are running an older format.\n",num_filled,line); + goto end; + } + printf("begin-prev-date=%.lf/%.lf/%.lf end-prev-date=%.lf/%.lf/%.lf mov_average=%d\n",jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,mobilav); + fprintf(ficparo,"begin-prev-date=%.lf/%.lf/%.lf end-prev-date=%.lf/%.lf/%.lf mov_average=%d\n",jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,mobilav); + fprintf(ficres,"begin-prev-date=%.lf/%.lf/%.lf end-prev-date=%.lf/%.lf/%.lf mov_average=%d\n",jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,mobilav); + fprintf(ficlog,"begin-prev-date=%.lf/%.lf/%.lf end-prev-date=%.lf/%.lf/%.lf mov_average=%d\n",jprev1, mprev1,anprev1,jprev2, mprev2,anprev2,mobilav); + } + + while(fgets(line, MAXLINE, ficpar)) { + /* If line starts with a # it is a comment */ + if (line[0] == '#') { + numlinepar++; + fputs(line,stdout); + fputs(line,ficparo); + fputs(line,ficlog); + fputs(line,ficres); + continue; + }else + break; } - ungetc(c,ficpar); dateprev1=anprev1+(mprev1-1)/12.+(jprev1-1)/365.; dateprev2=anprev2+(mprev2-1)/12.+(jprev2-1)/365.; - fscanf(ficpar,"pop_based=%d\n",&popbased); - fprintf(ficparo,"pop_based=%d\n",popbased); - fprintf(ficres,"pop_based=%d\n",popbased); - - while((c=getc(ficpar))=='#' && c!= EOF){ - ungetc(c,ficpar); - fgets(line, MAXLINE, ficpar); - fputs(line,stdout); - fputs(line,ficparo); + if((num_filled=sscanf(line,"pop_based=%d\n",&popbased)) !=EOF){ + if (num_filled != 1) { + printf("Error: Not 1 (data)parameters in line but %d, for example:pop_based=0\n, your line=%s . Probably you are running an older format.\n",num_filled,line); + fprintf(ficlog,"Error: Not 1 (data)parameters in line but %d, for example: pop_based=1\n, your line=%s . Probably you are running an older format.\n",num_filled,line); + goto end; + } + printf("pop_based=%d\n",popbased); + fprintf(ficlog,"pop_based=%d\n",popbased); + fprintf(ficparo,"pop_based=%d\n",popbased); + fprintf(ficres,"pop_based=%d\n",popbased); } - ungetc(c,ficpar); - - fscanf(ficpar,"prevforecast=%d starting-proj-date=%lf/%lf/%lf final-proj-date=%lf/%lf/%lf mobil_average=%d\n",&prevfcast,&jproj1,&mproj1,&anproj1,&jproj2,&mproj2,&anproj2,&mobilavproj); - fprintf(ficparo,"prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj); - printf("prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj); - fprintf(ficlog,"prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj); - fprintf(ficres,"prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj); - /* day and month of proj2 are not used but only year anproj2.*/ - - + + /* Results */ + /* Value of covariate in each resultine will be computed (if product) and sorted according to model rank */ + /* It is precov[] because we need the varying age in order to compute the real cov[] of the model equation */ + precov=matrix(1,MAXRESULTLINESPONE,1,NCOVMAX+1); + endishere=0; + nresult=0; + parameterline=0; + do{ + if(!fgets(line, MAXLINE, ficpar)){ + endishere=1; + parameterline=15; + }else if (line[0] == '#') { + /* If line starts with a # it is a comment */ + numlinepar++; + fputs(line,stdout); + fputs(line,ficparo); + fputs(line,ficlog); + fputs(line,ficres); + continue; + }else if(sscanf(line,"prevforecast=%[^\n]\n",modeltemp)) + parameterline=11; + else if(sscanf(line,"prevbackcast=%[^\n]\n",modeltemp)) + parameterline=12; + else if(sscanf(line,"result:%[^\n]\n",modeltemp)){ + parameterline=13; + } + else{ + parameterline=14; + } + switch (parameterline){ /* =0 only if only comments */ + case 11: + if((num_filled=sscanf(line,"prevforecast=%d starting-proj-date=%lf/%lf/%lf final-proj-date=%lf/%lf/%lf mobil_average=%d\n",&prevfcast,&jproj1,&mproj1,&anproj1,&jproj2,&mproj2,&anproj2,&mobilavproj)) !=EOF && (num_filled == 8)){ + fprintf(ficparo,"prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj); + printf("prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj); + fprintf(ficlog,"prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj); + fprintf(ficres,"prevforecast=%d starting-proj-date=%.lf/%.lf/%.lf final-proj-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevfcast,jproj1,mproj1,anproj1,jproj2,mproj2,anproj2,mobilavproj); + /* day and month of proj2 are not used but only year anproj2.*/ + dateproj1=anproj1+(mproj1-1)/12.+(jproj1-1)/365.; + dateproj2=anproj2+(mproj2-1)/12.+(jproj2-1)/365.; + prvforecast = 1; + } + else if((num_filled=sscanf(line,"prevforecast=%d yearsfproj=%lf mobil_average=%d\n",&prevfcast,&yrfproj,&mobilavproj)) !=EOF){/* && (num_filled == 3))*/ + printf("prevforecast=%d yearsfproj=%.2lf mobil_average=%d\n",prevfcast,yrfproj,mobilavproj); + fprintf(ficlog,"prevforecast=%d yearsfproj=%.2lf mobil_average=%d\n",prevfcast,yrfproj,mobilavproj); + fprintf(ficres,"prevforecast=%d yearsfproj=%.2lf mobil_average=%d\n",prevfcast,yrfproj,mobilavproj); + prvforecast = 2; + } + else { + printf("Error: Not 8 (data)parameters in line but %d, for example:prevforecast=1 starting-proj-date=1/1/1990 final-proj-date=1/1/2000 mobil_average=0\nnor 3 (data)parameters, for example:prevforecast=1 yearsfproj=10 mobil_average=0. Your line=%s . You are running probably an older format.\n, ",num_filled,line); + fprintf(ficlog,"Error: Not 8 (data)parameters in line but %d, for example:prevforecast=1 starting-proj-date=1/1/1990 final-proj-date=1/1/2000 mobil_average=0\nnor 3 (data)parameters, for example:prevforecast=1 yearproj=10 mobil_average=0. Your line=%s . You are running probably an older format.\n, ",num_filled,line); + goto end; + } + break; + case 12: + if((num_filled=sscanf(line,"prevbackcast=%d starting-back-date=%lf/%lf/%lf final-back-date=%lf/%lf/%lf mobil_average=%d\n",&prevbcast,&jback1,&mback1,&anback1,&jback2,&mback2,&anback2,&mobilavproj)) !=EOF && (num_filled == 8)){ + fprintf(ficparo,"prevbackcast=%d starting-back-date=%.lf/%.lf/%.lf final-back-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevbcast,jback1,mback1,anback1,jback2,mback2,anback2,mobilavproj); + printf("prevbackcast=%d starting-back-date=%.lf/%.lf/%.lf final-back-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevbcast,jback1,mback1,anback1,jback2,mback2,anback2,mobilavproj); + fprintf(ficlog,"prevbackcast=%d starting-back-date=%.lf/%.lf/%.lf final-back-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevbcast,jback1,mback1,anback1,jback2,mback2,anback2,mobilavproj); + fprintf(ficres,"prevbackcast=%d starting-back-date=%.lf/%.lf/%.lf final-back-date=%.lf/%.lf/%.lf mobil_average=%d\n",prevbcast,jback1,mback1,anback1,jback2,mback2,anback2,mobilavproj); + /* day and month of back2 are not used but only year anback2.*/ + dateback1=anback1+(mback1-1)/12.+(jback1-1)/365.; + dateback2=anback2+(mback2-1)/12.+(jback2-1)/365.; + prvbackcast = 1; + } + else if((num_filled=sscanf(line,"prevbackcast=%d yearsbproj=%lf mobil_average=%d\n",&prevbcast,&yrbproj,&mobilavproj)) ==3){/* && (num_filled == 3))*/ + printf("prevbackcast=%d yearsbproj=%.2lf mobil_average=%d\n",prevbcast,yrbproj,mobilavproj); + fprintf(ficlog,"prevbackcast=%d yearsbproj=%.2lf mobil_average=%d\n",prevbcast,yrbproj,mobilavproj); + fprintf(ficres,"prevbackcast=%d yearsbproj=%.2lf mobil_average=%d\n",prevbcast,yrbproj,mobilavproj); + prvbackcast = 2; + } + else { + printf("Error: Not 8 (data)parameters in line but %d, for example:prevbackcast=1 starting-back-date=1/1/1990 final-back-date=1/1/2000 mobil_average=0\nnor 3 (data)parameters, for example:prevbackcast=1 yearsbproj=10 mobil_average=0. Your line=%s . You are running probably an older format.\n, ",num_filled,line); + fprintf(ficlog,"Error: Not 8 (data)parameters in line but %d, for example:prevbackcast=1 starting-back-date=1/1/1990 final-back-date=1/1/2000 mobil_average=0\nnor 3 (data)parameters, for example:prevbackcast=1 yearbproj=10 mobil_average=0. Your line=%s . You are running probably an older format.\n, ",num_filled,line); + goto end; + } + break; + case 13: + num_filled=sscanf(line,"result:%[^\n]\n",resultlineori); + nresult++; /* Sum of resultlines */ + /* printf("Result %d: result:%s\n",nresult, resultlineori); */ + /* removefirstspace(&resultlineori); */ + + if(strstr(resultlineori,"v") !=0){ + printf("Error. 'v' must be in upper case 'V' result: %s ",resultlineori); + fprintf(ficlog,"Error. 'v' must be in upper case result: %s ",resultlineori);fflush(ficlog); + return 1; + } + trimbb(resultline, resultlineori); /* Suppressing double blank in the resultline */ + /* printf("Decoderesult resultline=\"%s\" resultlineori=\"%s\"\n", resultline, resultlineori); */ + if(nresult > MAXRESULTLINESPONE-1){ + printf("ERROR: Current version of IMaCh limits the number of resultlines to %d, you used %d\nYou can use the 'r' parameter file '%s' which uses option mle=0 to get other results. ",MAXRESULTLINESPONE-1,nresult,rfileres); + fprintf(ficlog,"ERROR: Current version of IMaCh limits the number of resultlines to %d, you used %d\nYou can use the 'r' parameter file '%s' which uses option mle=0 to get other results. ",MAXRESULTLINESPONE-1,nresult,rfileres); + goto end; + } + + if(!decoderesult(resultline, nresult)){ /* Fills TKresult[nresult] combination and Tresult[nresult][k4+1] combination values */ + fprintf(ficparo,"result: %s\n",resultline); + fprintf(ficres,"result: %s\n",resultline); + fprintf(ficlog,"result: %s\n",resultline); + } else + goto end; + break; + case 14: + printf("Error: Unknown command '%s'\n",line); + fprintf(ficlog,"Error: Unknown command '%s'\n",line); + if(line[0] == ' ' || line[0] == '\n'){ + printf("It should not be an empty line '%s'\n",line); + fprintf(ficlog,"It should not be an empty line '%s'\n",line); + } + if(ncovmodel >=2 && nresult==0 ){ + printf("ERROR: no result lines! It should be at minimum 'result: V2=0 V1=1 or result:.' %s\n",line); + fprintf(ficlog,"ERROR: no result lines! It should be at minimum 'result: V2=0 V1=1 or result:.' %s\n",line); + } + /* goto end; */ + break; + case 15: + printf("End of resultlines.\n"); + fprintf(ficlog,"End of resultlines.\n"); + break; + default: /* parameterline =0 */ + nresult=1; + decoderesult(".",nresult ); /* No covariate */ + } /* End switch parameterline */ + }while(endishere==0); /* End do */ - /* freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvaraff,nbcode, ncodemax,mint,anint); */ + /* freqsummary(fileres, agemin, agemax, s, agev, nlstate, imx,Tvaraff,nbcode, ncodemax,mint,anint); */ /* ,dateprev1,dateprev2,jprev1, mprev1,anprev1,jprev2, mprev2,anprev2); */ replace_back_to_slash(pathc,pathcd); /* Even gnuplot wants a / */ - printinggnuplot(fileres, optionfilefiname,ageminpar,agemaxpar,fage, pathc,p); - - printinghtml(fileres,title,datafile, firstpass, lastpass, stepm, weightopt,\ - model,imx,jmin,jmax,jmean,rfileres,popforecast,estepm,\ - jprev1,mprev1,anprev1,jprev2,mprev2,anprev2); + if(ageminpar == AGEOVERFLOW ||agemaxpar == -AGEOVERFLOW){ + printf("Warning! Error in gnuplot file with ageminpar %f or agemaxpar %f overflow\n\ +This is probably because your parameter file doesn't \n contain the exact number of lines (or columns) corresponding to your model line.\n\ +Please run with mle=-1 to get a correct covariance matrix.\n",ageminpar,agemaxpar); + fprintf(ficlog,"Warning! Error in gnuplot file with ageminpar %f or agemaxpar %f overflow\n\ +This is probably because your parameter file doesn't \n contain the exact number of lines (or columns) corresponding to your model line.\n\ +Please run with mle=-1 to get a correct covariance matrix.\n",ageminpar,agemaxpar); + }else{ + /* printinggnuplot(fileresu, optionfilefiname,ageminpar,agemaxpar,fage, prevfcast, backcast, pathc,p, (int)anproj1-(int)agemin, (int)anback1-(int)agemax+1); */ + /* It seems that anprojd which is computed from the mean year at interview which is known yet because of freqsummary */ + /* date2dmy(dateintmean,&jintmean,&mintmean,&aintmean); */ /* Done in freqsummary */ + if(prvforecast==1){ + dateprojd=(jproj1+12*mproj1+365*anproj1)/365; + jprojd=jproj1; + mprojd=mproj1; + anprojd=anproj1; + dateprojf=(jproj2+12*mproj2+365*anproj2)/365; + jprojf=jproj2; + mprojf=mproj2; + anprojf=anproj2; + } else if(prvforecast == 2){ + dateprojd=dateintmean; + date2dmy(dateprojd,&jprojd, &mprojd, &anprojd); + dateprojf=dateintmean+yrfproj; + date2dmy(dateprojf,&jprojf, &mprojf, &anprojf); + } + if(prvbackcast==1){ + datebackd=(jback1+12*mback1+365*anback1)/365; + jbackd=jback1; + mbackd=mback1; + anbackd=anback1; + datebackf=(jback2+12*mback2+365*anback2)/365; + jbackf=jback2; + mbackf=mback2; + anbackf=anback2; + } else if(prvbackcast == 2){ + datebackd=dateintmean; + date2dmy(datebackd,&jbackd, &mbackd, &anbackd); + datebackf=dateintmean-yrbproj; + date2dmy(datebackf,&jbackf, &mbackf, &anbackf); + } - /*------------ free_vector -------------*/ - /* chdir(path); */ - - free_ivector(wav,1,imx); - free_imatrix(dh,1,lastpass-firstpass+1,1,imx); - free_imatrix(bh,1,lastpass-firstpass+1,1,imx); - free_imatrix(mw,1,lastpass-firstpass+1,1,imx); - free_lvector(num,1,n); - free_vector(agedc,1,n); + printinggnuplot(fileresu, optionfilefiname,ageminpar,agemaxpar,bage, fage, prevfcast, prevbcast, pathc,p, (int)anprojd-bage, (int)anbackd-fage);/* HERE valgrind Tvard*/ + } + printinghtml(fileresu,title,datafile, firstpass, lastpass, stepm, weightopt, \ + model,imx,jmin,jmax,jmean,rfileres,popforecast,mobilav,prevfcast,mobilavproj,prevbcast, estepm, \ + jprev1,mprev1,anprev1,dateprev1, dateprojd, datebackd,jprev2,mprev2,anprev2,dateprev2,dateprojf, datebackf); + + /*------------ free_vector -------------*/ + /* chdir(path); */ + + /* free_ivector(wav,1,imx); */ /* Moved after last prevalence call */ + /* free_imatrix(dh,1,lastpass-firstpass+2,1,imx); */ + /* free_imatrix(bh,1,lastpass-firstpass+2,1,imx); */ + /* free_imatrix(mw,1,lastpass-firstpass+2,1,imx); */ + free_lvector(num,firstobs,lastobs); + free_vector(agedc,firstobs,lastobs); /*free_matrix(covar,0,NCOVMAX,1,n);*/ /*free_matrix(covar,1,NCOVMAX,1,n);*/ fclose(ficparo); fclose(ficres); - - + + + /* Other results (useful)*/ + + /*--------------- Prevalence limit (period or stable prevalence) --------------*/ -#include "prevlim.h" /* Use ficrespl, ficlog */ + /*#include "prevlim.h"*/ /* Use ficrespl, ficlog */ + prlim=matrix(1,nlstate,1,nlstate); + /* Computes the prevalence limit for each combination k of the dummy covariates by calling prevalim(k) */ + prevalence_limit(p, prlim, ageminpar, agemaxpar, ftolpl, &ncvyear); fclose(ficrespl); -#ifdef FREEEXIT2 -#include "freeexit2.h" -#endif - /*------------- h Pij x at various ages ------------*/ -#include "hpijx.h" + /*#include "hpijx.h"*/ + /** h Pij x Probability to be in state j at age x+h being in i at x, for each combination k of dummies in the model line or to nres?*/ + /* calls hpxij with combination k */ + hPijx(p, bage, fage); fclose(ficrespij); - - /*-------------- Variance of one-step probabilities---*/ + + /* ncovcombmax= pow(2,cptcoveff); */ + /*-------------- Variance of one-step probabilities for a combination ij or for nres ?---*/ k=1; varprob(optionfilefiname, matcov, p, delti, nlstate, bage, fage,k,Tvar,nbcode, ncodemax,strstart); - - - probs= ma3x(1,AGESUP,1,NCOVMAX, 1,NCOVMAX); - for(i=1;i<=AGESUP;i++) - for(j=1;j<=NCOVMAX;j++) - for(k=1;k<=NCOVMAX;k++) + + /* Prevalence for each covariate combination in probs[age][status][cov] */ + probs= ma3x(AGEINF,AGESUP,1,nlstate+ndeath, 1,ncovcombmax); + for(i=AGEINF;i<=AGESUP;i++) + for(j=1;j<=nlstate+ndeath;j++) /* ndeath is useless but a necessity to be compared with mobaverages */ + for(k=1;k<=ncovcombmax;k++) probs[i][j][k]=0.; - + prevalence(probs, ageminpar, agemaxpar, s, agev, nlstate, imx, Tvar, nbcode, + ncodemax, mint, anint, dateprev1, dateprev2, firstpass, lastpass); + if (mobilav!=0 ||mobilavproj !=0 ) { + mobaverages= ma3x(AGEINF, AGESUP,1,nlstate+ndeath, 1,ncovcombmax); + for(i=AGEINF;i<=AGESUP;i++) + for(j=1;j<=nlstate+ndeath;j++) + for(k=1;k<=ncovcombmax;k++) + mobaverages[i][j][k]=0.; + mobaverage=mobaverages; + if (mobilav!=0) { + printf("Movingaveraging observed prevalence\n"); + fprintf(ficlog,"Movingaveraging observed prevalence\n"); + if (movingaverage(probs, ageminpar, agemaxpar, mobaverage, mobilav)!=0){ + fprintf(ficlog," Error in movingaverage mobilav=%d\n",mobilav); + printf(" Error in movingaverage mobilav=%d\n",mobilav); + } + } else if (mobilavproj !=0) { + printf("Movingaveraging projected observed prevalence\n"); + fprintf(ficlog,"Movingaveraging projected observed prevalence\n"); + if (movingaverage(probs, ageminpar, agemaxpar, mobaverage, mobilavproj)!=0){ + fprintf(ficlog," Error in movingaverage mobilavproj=%d\n",mobilavproj); + printf(" Error in movingaverage mobilavproj=%d\n",mobilavproj); + } + }else{ + printf("Internal error moving average\n"); + fflush(stdout); + exit(1); + } + }/* end if moving average */ + /*---------- Forecasting ------------------*/ - /*if((stepm == 1) && (strcmp(model,".")==0)){*/ - if(prevfcast==1){ - /* if(stepm ==1){*/ - prevforecast(fileres, anproj1, mproj1, jproj1, agemin, agemax, dateprev1, dateprev2, mobilavproj, bage, fage, firstpass, lastpass, anproj2, p, cptcoveff); - /* (popforecast==1) populforecast(fileres, anpyram,mpyram,jpyram, agemin,agemax, dateprev1, dateprev2,mobilav, agedeb, fage, popforecast, popfile, anpyram1,p, i1);*/ - /* } */ - /* else{ */ - /* erreur=108; */ - /* printf("Warning %d!! You can only forecast the prevalences if the optimization\n has been performed with stepm = 1 (month) instead of %d or model=. instead of '%s'\n", erreur, stepm, model); */ - /* fprintf(ficlog,"Warning %d!! You can only forecast the prevalences if the optimization\n has been performed with stepm = 1 (month) instead of %d or model=. instead of '%s'\n", erreur, stepm, model); */ - /* } */ - } - - - /* Computes prevalence between agemin (i.e minimal age computed) and no more ageminpar */ - - prevalence(probs, agemin, agemax, s, agev, nlstate, imx, Tvar, nbcode, ncodemax, mint, anint, dateprev1, dateprev2, firstpass, lastpass); - /* printf("ageminpar=%f, agemax=%f, s[lastpass][imx]=%d, agev[lastpass][imx]=%f, nlstate=%d, imx=%d, mint[lastpass][imx]=%f, anint[lastpass][imx]=%f,dateprev1=%f, dateprev2=%f, firstpass=%d, lastpass=%d\n",\ - ageminpar, agemax, s[lastpass][imx], agev[lastpass][imx], nlstate, imx, mint[lastpass][imx],anint[lastpass][imx], dateprev1, dateprev2, firstpass, lastpass); - */ + if(prevfcast==1){ + /* /\* if(stepm ==1){*\/ */ + /* /\* anproj1, mproj1, jproj1 either read explicitly or yrfproj *\/ */ + /*This done previously after freqsummary.*/ + /* dateprojd=(jproj1+12*mproj1+365*anproj1)/365; */ + /* dateprojf=(jproj2+12*mproj2+365*anproj2)/365; */ + + /* } else if (prvforecast==2){ */ + /* /\* if(stepm ==1){*\/ */ + /* /\* anproj1, mproj1, jproj1 either read explicitly or yrfproj *\/ */ + /* } */ + /*prevforecast(fileresu, dateintmean, anproj1, mproj1, jproj1, agemin, agemax, dateprev1, dateprev2, mobilavproj, mobaverage, bage, fage, firstpass, lastpass, anproj2, p, cptcoveff);*/ + prevforecast(fileresu,dateintmean, dateprojd, dateprojf, agemin, agemax, dateprev1, dateprev2, mobilavproj, mobaverage, bage, fage, firstpass, lastpass, p, cptcoveff); + } + + /* Prevbcasting */ + if(prevbcast==1){ + ddnewms=matrix(1,nlstate+ndeath,1,nlstate+ndeath); + ddoldms=matrix(1,nlstate+ndeath,1,nlstate+ndeath); + ddsavms=matrix(1,nlstate+ndeath,1,nlstate+ndeath); + + /*--------------- Back Prevalence limit (period or stable prevalence) --------------*/ + + bprlim=matrix(1,nlstate,1,nlstate); + + back_prevalence_limit(p, bprlim, ageminpar, agemaxpar, ftolpl, &ncvyear, dateprev1, dateprev2, firstpass, lastpass, mobilavproj); + fclose(ficresplb); + + hBijx(p, bage, fage, mobaverage); + fclose(ficrespijb); + + /* /\* prevbackforecast(fileresu, mobaverage, anback1, mback1, jback1, agemin, agemax, dateprev1, dateprev2, *\/ */ + /* /\* mobilavproj, bage, fage, firstpass, lastpass, anback2, p, cptcoveff); *\/ */ + /* prevbackforecast(fileresu, mobaverage, anback1, mback1, jback1, agemin, agemax, dateprev1, dateprev2, */ + /* mobilavproj, bage, fage, firstpass, lastpass, anback2, p, cptcoveff); */ + prevbackforecast(fileresu, mobaverage, dateintmean, dateprojd, dateprojf, agemin, agemax, dateprev1, dateprev2, + mobilavproj, bage, fage, firstpass, lastpass, p, cptcoveff); - if (mobilav!=0) { - mobaverage= ma3x(1, AGESUP,1,NCOVMAX, 1,NCOVMAX); - if (movingaverage(probs, bage, fage, mobaverage,mobilav)!=0){ - fprintf(ficlog," Error in movingaverage mobilav=%d\n",mobilav); - printf(" Error in movingaverage mobilav=%d\n",mobilav); - } - } + + varbprlim(fileresu, nresult, mobaverage, mobilavproj, bage, fage, bprlim, &ncvyear, ftolpl, p, matcov, delti, stepm, cptcoveff); + + free_matrix(bprlim,1,nlstate,1,nlstate); /*here or after loop ? */ + free_matrix(ddnewms, 1, nlstate+ndeath, 1, nlstate+ndeath); + free_matrix(ddsavms, 1, nlstate+ndeath, 1, nlstate+ndeath); + free_matrix(ddoldms, 1, nlstate+ndeath, 1, nlstate+ndeath); + } /* end Prevbcasting */ + + + /* ------ Other prevalence ratios------------ */ + free_ivector(wav,1,imx); + free_imatrix(dh,1,lastpass-firstpass+2,1,imx); + free_imatrix(bh,1,lastpass-firstpass+2,1,imx); + free_imatrix(mw,1,lastpass-firstpass+2,1,imx); + + /*---------- Health expectancies, no variances ------------*/ - - strcpy(filerese,"e"); - strcat(filerese,fileres); + + strcpy(filerese,"E_"); + strcat(filerese,fileresu); if((ficreseij=fopen(filerese,"w"))==NULL) { printf("Problem with Health Exp. resultfile: %s\n", filerese); exit(0); fprintf(ficlog,"Problem with Health Exp. resultfile: %s\n", filerese); exit(0); } - printf("Computing Health Expectancies: result on file '%s' \n", filerese); - fprintf(ficlog,"Computing Health Expectancies: result on file '%s' \n", filerese); - /*for(cptcov=1,k=0;cptcov<=i1;cptcov++){ - for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*/ - - for (k=1; k <= (int) pow(2,cptcoveff); k++){ - fprintf(ficreseij,"\n#****** "); - for(j=1;j<=cptcoveff;j++) { - fprintf(ficreseij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); - } - fprintf(ficreseij,"******\n"); + printf("Computing Health Expectancies: result on file '%s' ...", filerese);fflush(stdout); + fprintf(ficlog,"Computing Health Expectancies: result on file '%s' ...", filerese);fflush(ficlog); - eij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage); - oldm=oldms;savm=savms; - evsij(eij, p, nlstate, stepm, (int) bage, (int)fage, oldm, savm, k, estepm, strstart); + pstamp(ficreseij); + + /* i1=pow(2,cptcoveff); /\* Number of combination of dummy covariates *\/ */ + /* if (cptcovn < 1){i1=1;} */ + + for(nres=1; nres <= nresult; nres++){ /* For each resultline */ + /* for(k=1; k<=i1;k++){ /\* For any combination of dummy covariates, fixed and varying *\/ */ + /* if(i1 != 1 && TKresult[nres]!= k) */ + /* continue; */ + fprintf(ficreseij,"\n#****** "); + printf("\n#****** "); + for(j=1;j<=cptcovs;j++){ + /* for(j=1;j<=cptcoveff;j++) { */ + /* fprintf(ficreseij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,TnsdVar[Tvaraff[j]])]); */ + fprintf(ficreseij," V%d=%lg ",Tvresult[nres][j],TinvDoQresult[nres][Tvresult[nres][j]]); + printf(" V%d=%lg ",Tvresult[nres][j],TinvDoQresult[nres][Tvresult[nres][j]]); + /* printf("V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,TnsdVar[Tvaraff[j]])]); */ + } + for (j=1; j<= nsq; j++){ /* For each selected (single) quantitative value */ + printf(" V%d=%lg ",TvarsQ[j], TinvDoQresult[nres][TvarsQ[j]]); /* TvarsQ[j] gives the name of the jth quantitative (fixed or time v) */ + fprintf(ficreseij,"V%d=%lg ",TvarsQ[j], TinvDoQresult[nres][TvarsQ[j]]); + } + fprintf(ficreseij,"******\n"); + printf("******\n"); - free_ma3x(eij,1,nlstate,1,nlstate,(int) bage, (int)fage); - /*}*/ + eij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage); + oldm=oldms;savm=savms; + /* printf("HELLO Entering evsij bage=%d fage=%d k=%d estepm=%d nres=%d\n",(int) bage, (int)fage, k, estepm, nres); */ + evsij(eij, p, nlstate, stepm, (int) bage, (int)fage, oldm, savm, k, estepm, strstart, nres); + + free_ma3x(eij,1,nlstate,1,nlstate,(int) bage, (int)fage); } fclose(ficreseij); + printf("done evsij\n");fflush(stdout); + fprintf(ficlog,"done evsij\n");fflush(ficlog); - - /*---------- Health expectancies and variances ------------*/ - - - strcpy(filerest,"t"); - strcat(filerest,fileres); + + /*---------- State-specific expectancies and variances ------------*/ + /* Should be moved in a function */ + strcpy(filerest,"T_"); + strcat(filerest,fileresu); if((ficrest=fopen(filerest,"w"))==NULL) { printf("Problem with total LE resultfile: %s\n", filerest);goto end; fprintf(ficlog,"Problem with total LE resultfile: %s\n", filerest);goto end; } - printf("Computing Total Life expectancies with their standard errors: file '%s' \n", filerest); - fprintf(ficlog,"Computing Total Life expectancies with their standard errors: file '%s' \n", filerest); - - - strcpy(fileresstde,"stde"); - strcat(fileresstde,fileres); + printf("Computing Total Life expectancies with their standard errors: file '%s' ...\n", filerest); fflush(stdout); + fprintf(ficlog,"Computing Total Life expectancies with their standard errors: file '%s' ...\n", filerest); fflush(ficlog); + strcpy(fileresstde,"STDE_"); + strcat(fileresstde,fileresu); if((ficresstdeij=fopen(fileresstde,"w"))==NULL) { - printf("Problem with Health Exp. and std errors resultfile: %s\n", fileresstde); exit(0); - fprintf(ficlog,"Problem with Health Exp. and std errors resultfile: %s\n", fileresstde); exit(0); + printf("Problem with State specific Exp. and std errors resultfile: %s\n", fileresstde); exit(0); + fprintf(ficlog,"Problem with State specific Exp. and std errors resultfile: %s\n", fileresstde); exit(0); } - printf("Computing Health Expectancies and standard errors: result on file '%s' \n", fileresstde); - fprintf(ficlog,"Computing Health Expectancies and standard errors: result on file '%s' \n", fileresstde); + printf(" Computing State-specific Expectancies and standard errors: result on file '%s' \n", fileresstde); + fprintf(ficlog," Computing State-specific Expectancies and standard errors: result on file '%s' \n", fileresstde); - strcpy(filerescve,"cve"); - strcat(filerescve,fileres); + strcpy(filerescve,"CVE_"); + strcat(filerescve,fileresu); if((ficrescveij=fopen(filerescve,"w"))==NULL) { - printf("Problem with Covar. Health Exp. resultfile: %s\n", filerescve); exit(0); - fprintf(ficlog,"Problem with Covar. Health Exp. resultfile: %s\n", filerescve); exit(0); + printf("Problem with Covar. State-specific Exp. resultfile: %s\n", filerescve); exit(0); + fprintf(ficlog,"Problem with Covar. State-specific Exp. resultfile: %s\n", filerescve); exit(0); } - printf("Computing Covar. of Health Expectancies: result on file '%s' \n", filerescve); - fprintf(ficlog,"Computing Covar. of Health Expectancies: result on file '%s' \n", filerescve); + printf(" Computing Covar. of State-specific Expectancies: result on file '%s' \n", filerescve); + fprintf(ficlog," Computing Covar. of State-specific Expectancies: result on file '%s' \n", filerescve); - strcpy(fileresv,"v"); - strcat(fileresv,fileres); + strcpy(fileresv,"V_"); + strcat(fileresv,fileresu); if((ficresvij=fopen(fileresv,"w"))==NULL) { printf("Problem with variance resultfile: %s\n", fileresv);exit(0); fprintf(ficlog,"Problem with variance resultfile: %s\n", fileresv);exit(0); } - printf("Computing Variance-covariance of DFLEs: file '%s' \n", fileresv); - fprintf(ficlog,"Computing Variance-covariance of DFLEs: file '%s' \n", fileresv); - - /*for(cptcov=1,k=0;cptcov<=i1;cptcov++){ - for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*/ - - for (k=1; k <= (int) pow(2,cptcoveff); k++){ - fprintf(ficrest,"\n#****** "); - for(j=1;j<=cptcoveff;j++) - fprintf(ficrest,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); - fprintf(ficrest,"******\n"); - - fprintf(ficresstdeij,"\n#****** "); - fprintf(ficrescveij,"\n#****** "); - for(j=1;j<=cptcoveff;j++) { - fprintf(ficresstdeij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); - fprintf(ficrescveij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); - } - fprintf(ficresstdeij,"******\n"); - fprintf(ficrescveij,"******\n"); - - fprintf(ficresvij,"\n#****** "); - for(j=1;j<=cptcoveff;j++) - fprintf(ficresvij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); - fprintf(ficresvij,"******\n"); + printf(" Computing Variance-covariance of State-specific Expectancies: file '%s' ... ", fileresv);fflush(stdout); + fprintf(ficlog," Computing Variance-covariance of State-specific Expectancies: file '%s' ... ", fileresv);fflush(ficlog); - eij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage); - oldm=oldms;savm=savms; - cvevsij(eij, p, nlstate, stepm, (int) bage, (int)fage, oldm, savm, k, estepm, delti, matcov, strstart); - /* + i1=pow(2,cptcoveff); /* Number of combination of dummy covariates */ + if (cptcovn < 1){i1=1;} + + for(nres=1; nres <= nresult; nres++) /* For each resultline, find the combination and output results according to the values of dummies and then quanti. */ + for(k=1; k<=i1;k++){ /* For any combination of dummy covariates, fixed and varying. For each nres and each value at position k + * we know Tresult[nres][result_position]= value of the dummy variable at the result_position in the nres resultline + * Tvqresult[nres][result_position]= id of the variable at the result_position in the nres resultline + * and Tqresult[nres][result_position]= value of the variable at the result_position in the nres resultline */ + /* */ + if(i1 != 1 && TKresult[nres]!= k) /* TKresult[nres] is the combination of this nres resultline. All the i1 combinations are not output */ + continue; + printf("\n# model=1+age+%s \n#****** Result for:", model); /* HERE model is empty */ + fprintf(ficrest,"\n# model=1+age+%s \n#****** Result for:", model); + fprintf(ficlog,"\n# model=1+age+%s \n#****** Result for:", model); + /* It might not be a good idea to mix dummies and quantitative */ + /* for(j=1;j<=cptcoveff;j++){ /\* j=resultpos. Could be a loop on cptcovs: number of single dummy covariate in the result line as well as in the model *\/ */ + for(j=1;j<=cptcovs;j++){ /* j=resultpos. Could be a loop on cptcovs: number of single covariate (dummy or quantitative) in the result line as well as in the model */ + /* printf("V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,TnsdVar[Tvaraff[j]])]); /\* Output by variables in the resultline *\/ */ + /* Tvaraff[j] is the name of the dummy variable in position j in the equation model: + * Tvaraff[1]@9={4, 3, 0, 0, 0, 0, 0, 0, 0}, in model=V5+V4+V3+V4*V3+V5*age + * (V5 is quanti) V4 and V3 are dummies + * TnsdVar[4] is the position 1 and TnsdVar[3]=2 in codtabm(k,l)(V4 V3)=V4 V3 + * l=1 l=2 + * k=1 1 1 0 0 + * k=2 2 1 1 0 + * k=3 [1] [2] 0 1 + * k=4 2 2 1 1 + * If nres=1 result: V3=1 V4=0 then k=3 and outputs + * If nres=2 result: V4=1 V3=0 then k=2 and outputs + * nres=1 =>k=3 j=1 V4= nbcode[4][codtabm(3,1)=1)=0; j=2 V3= nbcode[3][codtabm(3,2)=2]=1 + * nres=2 =>k=2 j=1 V4= nbcode[4][codtabm(2,1)=2)=1; j=2 V3= nbcode[3][codtabm(2,2)=1]=0 */ - /* goto endfree; */ - - vareij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage); - pstamp(ficrest); - - - for(vpopbased=0; vpopbased <= popbased; vpopbased++){ /* Done for vpopbased=0 and vpopbased=1 if popbased==1*/ - oldm=oldms;savm=savms; /* Segmentation fault */ - varevsij(optionfilefiname, vareij, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl,k, estepm, cptcov,cptcod,vpopbased,mobilav, strstart); - fprintf(ficrest,"# Total life expectancy with std error and decomposition into time to be expected in each health state\n# (weighted average of eij where weights are "); - if(vpopbased==1) - fprintf(ficrest,"the age specific prevalence observed (cross-sectionally) in the population i.e cross-sectionally\n in each health state (popbased=1) (mobilav=%d)\n",mobilav); - else - fprintf(ficrest,"the age specific period (stable) prevalences in each health state \n"); - fprintf(ficrest,"# Age e.. (std) "); - for (i=1;i<=nlstate;i++) fprintf(ficrest,"e.%d (std) ",i); - fprintf(ficrest,"\n"); - - epj=vector(1,nlstate+1); - for(age=bage; age <=fage ;age++){ - prevalim(prlim, nlstate, p, age, oldm, savm,ftolpl,k); - if (vpopbased==1) { - if(mobilav ==0){ - for(i=1; i<=nlstate;i++) - prlim[i][i]=probs[(int)age][i][k]; - }else{ /* mobilav */ - for(i=1; i<=nlstate;i++) - prlim[i][i]=mobaverage[(int)age][i][k]; - } - } - - fprintf(ficrest," %4.0f",age); - for(j=1, epj[nlstate+1]=0.;j <=nlstate;j++){ - for(i=1, epj[j]=0.;i <=nlstate;i++) { - epj[j] += prlim[i][i]*eij[i][j][(int)age]; - /* printf("%lf %lf ", prlim[i][i] ,eij[i][j][(int)age]);*/ - } - epj[nlstate+1] +=epj[j]; + /* Tvresult[nres][j] Name of the variable at position j in this resultline */ + /* Tresult[nres][j] Value of this variable at position j could be a float if quantitative */ +/* We give up with the combinations!! */ + /* if(debugILK) */ + /* printf("\n j=%d In computing T_ Dummy[modelresult[%d][%d]]=%d, modelresult[%d][%d]=%d cptcovs=%d, cptcoveff=%d Fixed[modelresult[nres][j]]=%d\n", j, nres, j, Dummy[modelresult[nres][j]],nres,j,modelresult[nres][j],cptcovs, cptcoveff,Fixed[modelresult[nres][j]]); /\* end if dummy or quanti *\/ */ + + if(Dummy[modelresult[nres][j]]==0){/* Dummy variable of the variable in position modelresult in the model corresponding to j in resultline */ + /* printf("V%d=%lg ",Tvresult[nres][j],TinvDoQresult[nres][j]); /\* Output of each value for the combination TKresult[nres], ordere by the covariate values in the resultline *\/ */ /* TinvDoQresult[nres][Name of the variable] */ + printf("V%d=%lg ",Tvresult[nres][j],TinvDoQresult[nres][Tvresult[nres][j]]); /* Output of each value for the combination TKresult[nres], ordered by the covariate values in the resultline */ + fprintf(ficlog,"V%d=%lg ",Tvresult[nres][j],TinvDoQresult[nres][Tvresult[nres][j]]); /* Output of each value for the combination TKresult[nres], ordere by the covariate values in the resultline */ + fprintf(ficrest,"V%d=%lg ",Tvresult[nres][j],TinvDoQresult[nres][Tvresult[nres][j]]); /* Output of each value for the combination TKresult[nres], ordere by the covariate values in the resultline */ + if(Fixed[modelresult[nres][j]]==0){ /* Fixed */ + printf("fixed ");fprintf(ficlog,"fixed ");fprintf(ficrest,"fixed "); + }else{ + printf("varyi ");fprintf(ficlog,"varyi ");fprintf(ficrest,"varyi "); + } + /* fprintf(ficrest,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,TnsdVar[Tvaraff[j]])]); */ + /* fprintf(ficlog,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,TnsdVar[Tvaraff[j]])]); */ + }else if(Dummy[modelresult[nres][j]]==1){ /* Quanti variable */ + /* For each selected (single) quantitative value */ + printf(" V%d=%lg ",Tvqresult[nres][j],Tqresult[nres][j]); + fprintf(ficlog," V%d=%lg ",Tvqresult[nres][j],Tqresult[nres][j]); + fprintf(ficrest," V%d=%lg ",Tvqresult[nres][j],Tqresult[nres][j]); + if(Fixed[modelresult[nres][j]]==0){ /* Fixed */ + printf("fixed ");fprintf(ficlog,"fixed ");fprintf(ficrest,"fixed "); + }else{ + printf("varyi ");fprintf(ficlog,"varyi ");fprintf(ficrest,"varyi "); + } + }else{ + printf("Error in computing T_ Dummy[modelresult[%d][%d]]=%d, modelresult[%d][%d]=%d cptcovs=%d, cptcoveff=%d \n", nres, j, Dummy[modelresult[nres][j]],nres,j,modelresult[nres][j],cptcovs, cptcoveff); /* end if dummy or quanti */ + fprintf(ficlog,"Error in computing T_ Dummy[modelresult[%d][%d]]=%d, modelresult[%d][%d]=%d cptcovs=%d, cptcoveff=%d \n", nres, j, Dummy[modelresult[nres][j]],nres,j,modelresult[nres][j],cptcovs, cptcoveff); /* end if dummy or quanti */ + exit(1); + } + } /* End loop for each variable in the resultline */ + /* for (j=1; j<= nsq; j++){ /\* For each selected (single) quantitative value *\/ */ + /* printf(" V%d=%f ",Tvqresult[nres][j],Tqresult[nres][resultmodel[nres][j]]); /\* Wrong j is not in the equation model *\/ */ + /* fprintf(ficrest," V%d=%f ",Tvqresult[nres][j],Tqresult[nres][resultmodel[nres][j]]); */ + /* fprintf(ficlog," V%d=%f ",Tvqresult[nres][j],Tqresult[nres][resultmodel[nres][j]]); */ + /* } */ + fprintf(ficrest,"******\n"); + fprintf(ficlog,"******\n"); + printf("******\n"); + + fprintf(ficresstdeij,"\n#****** "); + fprintf(ficrescveij,"\n#****** "); + /* It could have been: for(j=1;j<=cptcoveff;j++) {printf("V=%d=%lg",Tvresult[nres][cpt],TinvDoQresult[nres][Tvresult[nres][cpt]]);} */ + /* But it won't be sorted and depends on how the resultline is ordered */ + for(j=1;j<=cptcoveff;j++) { + fprintf(ficresstdeij,"V%d=%d ",Tvresult[nres][j],Tresult[nres][j]); + /* fprintf(ficresstdeij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,TnsdVar[Tvaraff[j]])]); */ + /* fprintf(ficrescveij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,TnsdVar[Tvaraff[j]])]); */ + } + for (j=1; j<= nsq; j++){ /* For each selected (single) quantitative value, TvarsQind gives the position of a quantitative in model equation */ + fprintf(ficresstdeij," V%d=%lg ",Tvar[TvarsQind[j]],Tqresult[nres][resultmodel[nres][TvarsQind[j]]]); + fprintf(ficrescveij," V%d=%lg ",Tvar[TvarsQind[j]],Tqresult[nres][resultmodel[nres][TvarsQind[j]]]); + } + fprintf(ficresstdeij,"******\n"); + fprintf(ficrescveij,"******\n"); + + fprintf(ficresvij,"\n#****** "); + /* pstamp(ficresvij); */ + for(j=1;j<=cptcoveff;j++) + fprintf(ficresvij,"V%d=%d ",Tvresult[nres][j],Tresult[nres][j]); + /* fprintf(ficresvij,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,TnsdVar[TnsdVar[Tvaraff[j]]])]); */ + for (j=1; j<= nsq; j++){ /* For each selected (single) quantitative value */ + /* fprintf(ficresvij," V%d=%f ",Tvqresult[nres][j],Tqresult[nres][j]); /\* To solve *\/ */ + fprintf(ficresvij," V%d=%lg ",Tvqresult[nres][j],Tqresult[nres][resultmodel[nres][j]]); /* Solved */ + } + fprintf(ficresvij,"******\n"); + + eij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage); + oldm=oldms;savm=savms; + printf(" cvevsij "); + fprintf(ficlog, " cvevsij "); + cvevsij(eij, p, nlstate, stepm, (int) bage, (int)fage, oldm, savm, k, estepm, delti, matcov, strstart, nres); + printf(" end cvevsij \n "); + fprintf(ficlog, " end cvevsij \n "); + + /* + */ + /* goto endfree; */ + + vareij=ma3x(1,nlstate,1,nlstate,(int) bage, (int) fage); + pstamp(ficrest); + + epj=vector(1,nlstate+1); + for(vpopbased=0; vpopbased <= popbased; vpopbased++){ /* Done for vpopbased=0 and vpopbased=1 if popbased==1*/ + oldm=oldms;savm=savms; /* ZZ Segmentation fault */ + cptcod= 0; /* To be deleted */ + printf("varevsij vpopbased=%d popbased=%d \n",vpopbased,popbased); + fprintf(ficlog, "varevsij vpopbased=%d popbased=%d \n",vpopbased,popbased); + varevsij(optionfilefiname, vareij, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl, &ncvyear, k, estepm, cptcov,cptcod,vpopbased,mobilav, strstart, nres); /* cptcod not initialized Intel */ + fprintf(ficrest,"# Total life expectancy with std error and decomposition into time to be expected in each state\n\ +# (these are weighted average of eij where weights are "); + if(vpopbased==1) + fprintf(ficrest,"the age specific prevalence observed (cross-sectionally) in the population i.e cross-sectionally)\n in each health state (popbased=1) (mobilav=%d)\n",mobilav); + else + fprintf(ficrest,"the age specific forward period (stable) prevalences in each state) \n"); + fprintf(ficrest,"# with proportions of time spent in each state with standard error (on the right of the table.\n "); + fprintf(ficrest,"# Age popbased mobilav e.. (std) "); /* Adding covariate values? */ + for (i=1;i<=nlstate;i++) fprintf(ficrest,"e.%d (std) ",i); + for (i=1;i<=nlstate;i++) fprintf(ficrest," %% e.%d/e.. (std) ",i); + fprintf(ficrest,"\n"); + /* printf("Which p?\n"); for(i=1;i<=npar;i++)printf("p[i=%d]=%lf,",i,p[i]);printf("\n"); */ + printf("Computing age specific forward period (stable) prevalences in each health state \n"); + fprintf(ficlog,"Computing age specific forward period (stable) prevalences in each health state \n"); + for(age=bage; age <=fage ;age++){ + prevalim(prlim, nlstate, p, age, oldm, savm, ftolpl, &ncvyear, k, nres); /*ZZ Is it the correct prevalim */ + if (vpopbased==1) { + if(mobilav ==0){ + for(i=1; i<=nlstate;i++) + prlim[i][i]=probs[(int)age][i][k]; + }else{ /* mobilav */ + for(i=1; i<=nlstate;i++) + prlim[i][i]=mobaverage[(int)age][i][k]; } - - for(i=1, vepp=0.;i <=nlstate;i++) - for(j=1;j <=nlstate;j++) - vepp += vareij[i][j][(int)age]; - fprintf(ficrest," %7.3f (%7.3f)", epj[nlstate+1],sqrt(vepp)); - for(j=1;j <=nlstate;j++){ - fprintf(ficrest," %7.3f (%7.3f)", epj[j],sqrt(vareij[j][j][(int)age])); + } + + fprintf(ficrest," %4.0f %d %d",age, vpopbased, mobilav); + /* fprintf(ficrest," %4.0f %d %d %d %d",age, vpopbased, mobilav,Tvaraff[j],nbcode[Tvaraff[j]][codtabm(k,j)]); */ /* to be done */ + /* printf(" age %4.0f ",age); */ + for(j=1, epj[nlstate+1]=0.;j <=nlstate;j++){ + for(i=1, epj[j]=0.;i <=nlstate;i++) { + epj[j] += prlim[i][i]*eij[i][j][(int)age]; + /*ZZZ printf("%lf %lf ", prlim[i][i] ,eij[i][j][(int)age]);*/ + /* printf("%lf %lf ", prlim[i][i] ,eij[i][j][(int)age]); */ } - fprintf(ficrest,"\n"); + epj[nlstate+1] +=epj[j]; + } + /* printf(" age %4.0f \n",age); */ + + for(i=1, vepp=0.;i <=nlstate;i++) + for(j=1;j <=nlstate;j++) + vepp += vareij[i][j][(int)age]; + fprintf(ficrest," %7.3f (%7.3f)", epj[nlstate+1],sqrt(vepp)); + /* vareij[j][i] is the variance of epj */ + for(j=1;j <=nlstate;j++){ + fprintf(ficrest," %7.3f (%7.3f)", epj[j],sqrt(vareij[j][j][(int)age])); } + /* And proportion of time spent in state j */ + /* $$ E[r(X,Y)-E(r(X,Y))]^2=[\frac{1}{\mu_y} -\frac{\mu_x}{{\mu_y}^2}]' Var(X,Y)[\frac{1}{\mu_y} -\frac{\mu_x}{{\mu_y}^2}]$$ */ + /* \sigma^2_x/\mu_y^2 +\sigma^2_y \mu^2x/\mu_y^4 */ + /*\mu_x = epj[j], \sigma^2_x = vareij[j][j][(int)age] and \mu_y=epj[nlstate+1], \sigma^2_y=vepp */ + /* vareij[j][j][(int)age]/epj[nlstate+1]^2 + vepp/epj[nlstata+1]^4 */ + for(j=1;j <=nlstate;j++){ + /* fprintf(ficrest," %7.3f (%7.3f)", epj[j]/epj[nlstate+1], sqrt( vareij[j][j][(int)age]/epj[j]/epj[j] + vepp/epj[j]/epj[j]/epj[j]/epj[j] )); */ + fprintf(ficrest," %7.3f (%7.3f)", epj[j]/epj[nlstate+1], sqrt( vareij[j][j][(int)age]/epj[nlstate+1]/epj[nlstate+1] + vepp/epj[nlstate+1]/epj[nlstate+1]/epj[nlstate+1]/epj[nlstate+1] )); + } + fprintf(ficrest,"\n"); } - free_ma3x(eij,1,nlstate,1,nlstate,(int) bage, (int)fage); - free_ma3x(vareij,1,nlstate,1,nlstate,(int) bage, (int)fage); - free_vector(epj,1,nlstate+1); - /*}*/ - } - free_vector(weight,1,n); + } /* End vpopbased */ + free_vector(epj,1,nlstate+1); + free_ma3x(eij,1,nlstate,1,nlstate,(int) bage, (int)fage); + free_ma3x(vareij,1,nlstate,1,nlstate,(int) bage, (int)fage); + printf("done selection\n");fflush(stdout); + fprintf(ficlog,"done selection\n");fflush(ficlog); + + } /* End k selection or end covariate selection for nres */ + + printf("done State-specific expectancies\n");fflush(stdout); + fprintf(ficlog,"done State-specific expectancies\n");fflush(ficlog); + + /* variance-covariance of forward period prevalence */ + varprlim(fileresu, nresult, mobaverage, mobilavproj, bage, fage, prlim, &ncvyear, ftolpl, p, matcov, delti, stepm, cptcoveff); + + + free_vector(weight,firstobs,lastobs); + free_imatrix(Tvardk,0,NCOVMAX,1,2); free_imatrix(Tvard,1,NCOVMAX,1,2); - free_imatrix(s,1,maxwav+1,1,n); - free_matrix(anint,1,maxwav,1,n); - free_matrix(mint,1,maxwav,1,n); - free_ivector(cod,1,n); + free_imatrix(s,1,maxwav+1,firstobs,lastobs); + free_matrix(anint,1,maxwav,firstobs,lastobs); + free_matrix(mint,1,maxwav,firstobs,lastobs); + free_ivector(cod,firstobs,lastobs); free_ivector(tab,1,NCOVMAX); fclose(ficresstdeij); fclose(ficrescveij); fclose(ficresvij); fclose(ficrest); fclose(ficpar); - - /*------- Variance of period (stable) prevalence------*/ - - strcpy(fileresvpl,"vpl"); - strcat(fileresvpl,fileres); - if((ficresvpl=fopen(fileresvpl,"w"))==NULL) { - printf("Problem with variance of period (stable) prevalence resultfile: %s\n", fileresvpl); - exit(0); - } - printf("Computing Variance-covariance of period (stable) prevalence: file '%s' \n", fileresvpl); - - /*for(cptcov=1,k=0;cptcov<=i1;cptcov++){ - for(cptcod=1;cptcod<=ncodemax[cptcov];cptcod++){*/ - - for (k=1; k <= (int) pow(2,cptcoveff); k++){ - fprintf(ficresvpl,"\n#****** "); - for(j=1;j<=cptcoveff;j++) - fprintf(ficresvpl,"V%d=%d ",Tvaraff[j],nbcode[Tvaraff[j]][codtab[k][j]]); - fprintf(ficresvpl,"******\n"); - - varpl=matrix(1,nlstate,(int) bage, (int) fage); - oldm=oldms;savm=savms; - varprevlim(fileres, varpl, matcov, p, delti, nlstate, stepm, (int) bage, (int) fage, oldm, savm, prlim, ftolpl,k,strstart); - free_matrix(varpl,1,nlstate,(int) bage, (int)fage); - /*}*/ - } - - fclose(ficresvpl); - + + /*---------- End : free ----------------*/ - if (mobilav!=0) free_ma3x(mobaverage,1, AGESUP,1,NCOVMAX, 1,NCOVMAX); - free_ma3x(probs,1,AGESUP,1,NCOVMAX, 1,NCOVMAX); - } /* mle==-3 arrives here for freeing */ - endfree: + if (mobilav!=0 ||mobilavproj !=0) + free_ma3x(mobaverages,AGEINF, AGESUP,1,nlstate+ndeath, 1,ncovcombmax); /* We need to have a squared matrix with prevalence of the dead! */ + free_ma3x(probs,AGEINF,AGESUP,1,nlstate+ndeath, 1,ncovcombmax); free_matrix(prlim,1,nlstate,1,nlstate); /*here or after loop ? */ free_matrix(pmmij,1,nlstate+ndeath,1,nlstate+ndeath); - free_matrix(oldms, 1,nlstate+ndeath,1,nlstate+ndeath); - free_matrix(newms, 1,nlstate+ndeath,1,nlstate+ndeath); - free_matrix(savms, 1,nlstate+ndeath,1,nlstate+ndeath); - free_matrix(covar,0,NCOVMAX,1,n); - free_matrix(matcov,1,npar,1,npar); - /*free_vector(delti,1,npar);*/ - free_ma3x(delti3,1,nlstate,1, nlstate+ndeath-1,1,ncovmodel); - free_matrix(agev,1,maxwav,1,imx); - free_ma3x(param,1,nlstate,1, nlstate+ndeath-1,1,ncovmodel); + } /* mle==-3 arrives here for freeing */ + /* endfree:*/ + if(mle!=-3) free_matrix(precov, 1,MAXRESULTLINESPONE,1,NCOVMAX+1); /* Could be elsewhere ?*/ + free_matrix(oldms, 1,nlstate+ndeath,1,nlstate+ndeath); + free_matrix(newms, 1,nlstate+ndeath,1,nlstate+ndeath); + free_matrix(savms, 1,nlstate+ndeath,1,nlstate+ndeath); + /* if(ntv+nqtv>=1)free_ma3x(cotvar,1,maxwav,1,ntv+nqtv,firstobs,lastobs); */ + if(ntv+nqtv>=1)free_ma3x(cotvar,1,maxwav,ncovcol+nqv+1,ncovcol+nqv+ntv+nqtv,firstobs,lastobs); + if(nqtv>=1)free_ma3x(cotqvar,1,maxwav,1,nqtv,firstobs,lastobs); + if(nqv>=1)free_matrix(coqvar,1,nqv,firstobs,lastobs); + free_matrix(covar,0,NCOVMAX,firstobs,lastobs); + free_matrix(matcov,1,npar,1,npar); + free_matrix(hess,1,npar,1,npar); + /*free_vector(delti,1,npar);*/ + free_ma3x(delti3,1,nlstate,1, nlstate+ndeath-1,1,ncovmodel); + free_matrix(agev,1,maxwav,1,imx); + free_ma3x(paramstart,1,nlstate,1, nlstate+ndeath-1,1,ncovmodel); + free_ma3x(param,1,nlstate,1, nlstate+ndeath-1,1,ncovmodel); + + free_ivector(ncodemax,1,NCOVMAX); + free_ivector(ncodemaxwundef,1,NCOVMAX); + free_ivector(Dummy,-1,NCOVMAX); + free_ivector(Fixed,-1,NCOVMAX); + free_ivector(DummyV,-1,NCOVMAX); + free_ivector(FixedV,-1,NCOVMAX); + free_ivector(Typevar,-1,NCOVMAX); + free_ivector(Tvar,1,NCOVMAX); + free_ivector(TvarsQ,1,NCOVMAX); + free_ivector(TvarsQind,1,NCOVMAX); + free_ivector(TvarsD,1,NCOVMAX); + free_ivector(TnsdVar,1,NCOVMAX); + free_ivector(TvarsDind,1,NCOVMAX); + free_ivector(TvarFD,1,NCOVMAX); + free_ivector(TvarFDind,1,NCOVMAX); + free_ivector(TvarF,1,NCOVMAX); + free_ivector(TvarFind,1,NCOVMAX); + free_ivector(TvarV,1,NCOVMAX); + free_ivector(TvarVind,1,NCOVMAX); + free_ivector(TvarA,1,NCOVMAX); + free_ivector(TvarAind,1,NCOVMAX); + free_ivector(TvarFQ,1,NCOVMAX); + free_ivector(TvarFQind,1,NCOVMAX); + free_ivector(TvarVD,1,NCOVMAX); + free_ivector(TvarVDind,1,NCOVMAX); + free_ivector(TvarVQ,1,NCOVMAX); + free_ivector(TvarVQind,1,NCOVMAX); + free_ivector(TvarAVVA,1,NCOVMAX); + free_ivector(TvarAVVAind,1,NCOVMAX); + free_ivector(TvarVVA,1,NCOVMAX); + free_ivector(TvarVVAind,1,NCOVMAX); + free_ivector(TvarVV,1,NCOVMAX); + free_ivector(TvarVVind,1,NCOVMAX); + + free_ivector(Tvarsel,1,NCOVMAX); + free_vector(Tvalsel,1,NCOVMAX); + free_ivector(Tposprod,1,NCOVMAX); + free_ivector(Tprod,1,NCOVMAX); + free_ivector(Tvaraff,1,NCOVMAX); + free_ivector(invalidvarcomb,0,ncovcombmax); + free_ivector(Tage,1,NCOVMAX); + free_ivector(Tmodelind,1,NCOVMAX); + free_ivector(TmodelInvind,1,NCOVMAX); + free_ivector(TmodelInvQind,1,NCOVMAX); - free_ivector(ncodemax,1,NCOVMAX); - free_ivector(Tvar,1,NCOVMAX); - free_ivector(Tprod,1,NCOVMAX); - free_ivector(Tvaraff,1,NCOVMAX); - free_ivector(Tage,1,NCOVMAX); + /* free_matrix(precov, 1,MAXRESULTLINESPONE,1,NCOVMAX+1); /\* Could be elsewhere ?*\/ */ - free_imatrix(nbcode,0,NCOVMAX,0,NCOVMAX); - free_imatrix(codtab,1,100,1,10); + free_imatrix(nbcode,0,NCOVMAX,0,NCOVMAX); + /* free_imatrix(codtab,1,100,1,10); */ fflush(fichtm); fflush(ficgp); - + if((nberr >0) || (nbwarn>0)){ - printf("End of Imach with %d errors and/or %d warnings\n",nberr,nbwarn); - fprintf(ficlog,"End of Imach with %d errors and/or warnings %d\n",nberr,nbwarn); + printf("End of Imach with %d errors and/or %d warnings. Please look at the log file for details.\n",nberr,nbwarn); + fprintf(ficlog,"End of Imach with %d errors and/or warnings %d. Please look at the log file for details.\n",nberr,nbwarn); }else{ printf("End of Imach\n"); fprintf(ficlog,"End of Imach\n"); } printf("See log file on %s\n",filelog); /* gettimeofday(&end_time, (struct timezone*)0);*/ /* after time */ - (void) gettimeofday(&end_time,&tzp); - tm = *localtime(&end_time.tv_sec); - tmg = *gmtime(&end_time.tv_sec); - strcpy(strtend,asctime(&tm)); + /*(void) gettimeofday(&end_time,&tzp);*/ + rend_time = time(NULL); + end_time = *localtime(&rend_time); + /* tml = *localtime(&end_time.tm_sec); */ + strcpy(strtend,asctime(&end_time)); printf("Local time at start %s\nLocal time at end %s",strstart, strtend); fprintf(ficlog,"Local time at start %s\nLocal time at end %s\n",strstart, strtend); - printf("Total time used %s\n", asc_diff_time(end_time.tv_sec -start_time.tv_sec,tmpout)); - - printf("Total time was %ld Sec.\n", end_time.tv_sec -start_time.tv_sec); - fprintf(ficlog,"Total time used %s\n", asc_diff_time(end_time.tv_sec -start_time.tv_sec,tmpout)); - fprintf(ficlog,"Total time was %ld Sec.\n", end_time.tv_sec -start_time.tv_sec); + printf("Total time used %s\n", asc_diff_time(rend_time -rstart_time,tmpout)); + + printf("Total time was %.0lf Sec.\n", difftime(rend_time,rstart_time)); + fprintf(ficlog,"Total time used %s\n", asc_diff_time(rend_time -rstart_time,tmpout)); + fprintf(ficlog,"Total time was %.0lf Sec.\n", difftime(rend_time,rstart_time)); /* printf("Total time was %d uSec.\n", total_usecs);*/ /* if(fileappend(fichtm,optionfilehtm)){ */ fprintf(fichtm,"Model= 1 + age "); + if(nagesqr==1){ + printf(" + age*age "); + fprintf(ficres," + age*age "); + fprintf(ficlog," + age*age "); + fprintf(fichtm, "+ age*age "); + } + for(j=1;j <=ncovmodel-2;j++){ + if(Typevar[j]==0) { + printf(" + V%d ",Tvar[j]); + fprintf(fichtm, "+ V%d ",Tvar[j]); + }else if(Typevar[j]==1) { + printf(" + V%d*age ",Tvar[j]); + fprintf(fichtm, "+ V%d*age ",Tvar[j]); + }else if(Typevar[j]==2) { + fprintf(fichtm, "+ V%d*V%d ",Tvard[Tposprod[j]][1],Tvard[Tposprod[j]][2]); + }else if(Typevar[j]==3) { /* TO VERIFY */ + fprintf(fichtm, "+ V%d*V%d*age ",Tvard[Tposprod[j]][1],Tvard[Tposprod[j]][2]); + } + } + fprintf(fichtm, ""); + printf("%d%d ",i,k); + fprintf(ficlog,"%d%d ",i,k); + fprintf(fichtm, " \n"); + } + } + } + } /* end of hesscov and Wald tests */ + fprintf(fichtm,"%1d%1d ",i,k); + for(j=1; j <=ncovmodel; j++){ + wald=p[jk]/sqrt(matcov[jk][jk]); + printf("%12.7f(%12.7f) W=%8.3f CI=[%12.7f ; %12.7f] ",p[jk],sqrt(matcov[jk][jk]), p[jk]/sqrt(matcov[jk][jk]), p[jk]-1.96*sqrt(matcov[jk][jk]),p[jk]+1.96*sqrt(matcov[jk][jk])); + fprintf(ficlog,"%12.7f(%12.7f) W=%8.3f CI=[%12.7f ; %12.7f] ",p[jk],sqrt(matcov[jk][jk]), p[jk]/sqrt(matcov[jk][jk]), p[jk]-1.96*sqrt(matcov[jk][jk]),p[jk]+1.96*sqrt(matcov[jk][jk])); + if(fabs(wald) > 1.96){ + fprintf(fichtm, "%12.7f (%12.7f)",p[jk],sqrt(matcov[jk][jk])); + }else{ + fprintf(fichtm, " %12.7f (%12.7f)",p[jk],sqrt(matcov[jk][jk])); + } + fprintf(fichtm,"W=%8.3f",wald); + fprintf(fichtm,"[%12.7f;%12.7f] ", p[jk]-1.96*sqrt(matcov[jk][jk]),p[jk]+1.96*sqrt(matcov[jk][jk])); + jk++; + } + printf("\n"); + fprintf(ficlog,"\n"); + fprintf(fichtm, "
Local time at start %s
Local time at end %s
\n",strstart, strtend); @@ -6626,28 +16976,36 @@ Interval (in months) between two waves: fclose(ficgp); fclose(ficlog); /*------ End -----------*/ + - - printf("Before Current directory %s!\n",pathcd); - if(chdir(pathcd) != 0) +/* Executes gnuplot */ + + printf("Before Current directory %s!\n",pathcd); +#ifdef WIN32 + if (_chdir(pathcd) != 0) printf("Can't move to directory %s!\n",path); - if(getcwd(pathcd,MAXLINE) > 0) + if(_getcwd(pathcd,MAXLINE) > 0) +#else + if(chdir(pathcd) != 0) + printf("Can't move to directory %s!\n", path); + if (getcwd(pathcd, MAXLINE) > 0) +#endif printf("Current directory %s!\n",pathcd); /*strcat(plotcmd,CHARSEPARATOR);*/ sprintf(plotcmd,"gnuplot"); -#ifndef UNIX +#ifdef _WIN32 sprintf(plotcmd,"\"%sgnuplot.exe\"",pathimach); #endif if(!stat(plotcmd,&info)){ - printf("Error gnuplot program not found: %s\n",plotcmd);fflush(stdout); + printf("Error or gnuplot program not found: '%s'\n",plotcmd);fflush(stdout); if(!stat(getenv("GNUPLOTBIN"),&info)){ - printf("Error gnuplot program not found: %s Environment GNUPLOTBIN not set.\n",plotcmd);fflush(stdout); + printf("Error or gnuplot program not found: '%s' Environment GNUPLOTBIN not set.\n",plotcmd);fflush(stdout); }else strcpy(pplotcmd,plotcmd); -#ifdef UNIX +#ifdef __unix strcpy(plotcmd,GNUPLOTPROGRAM); if(!stat(plotcmd,&info)){ - printf("Error gnuplot program not found: %s\n",plotcmd);fflush(stdout); + printf("Error gnuplot program not found: '%s'\n",plotcmd);fflush(stdout); }else strcpy(pplotcmd,plotcmd); #endif @@ -6655,30 +17013,43 @@ Interval (in months) between two waves: strcpy(pplotcmd,plotcmd); sprintf(plotcmd,"%s %s",pplotcmd, optionfilegnuplot); - printf("Starting graphs with: %s\n",plotcmd);fflush(stdout); - + printf("Starting graphs with: '%s'\n",plotcmd);fflush(stdout); + strcpy(pplotcmd,plotcmd); + if((outcmd=system(plotcmd)) != 0){ - printf("\n Problem with gnuplot\n"); + printf("Error in gnuplot, command might not be in your path: '%s', err=%d\n", plotcmd, outcmd); + printf("\n Trying if gnuplot resides on the same directory that IMaCh\n"); + sprintf(plotcmd,"%sgnuplot %s", pathimach, optionfilegnuplot); + if((outcmd=system(plotcmd)) != 0){ + printf("\n Still a problem with gnuplot command %s, err=%d\n", plotcmd, outcmd); + strcpy(plotcmd,pplotcmd); + } } - printf(" Wait..."); + printf(" Successful, please wait..."); while (z[0] != 'q') { /* chdir(path); */ - printf("\nType e to edit output files, g to graph again and q for exiting: "); + printf("\nType e to edit results with your browser, g to graph again and q for exit: "); scanf("%s",z); /* if (z[0] == 'c') system("./imach"); */ if (z[0] == 'e') { - printf("Starting browser with: %s",optionfilehtm);fflush(stdout); - system(optionfilehtm); +#ifdef __APPLE__ + sprintf(pplotcmd, "open %s", optionfilehtm); +#elif __linux + sprintf(pplotcmd, "xdg-open %s", optionfilehtm); +#else + sprintf(pplotcmd, "%s", optionfilehtm); +#endif + printf("Starting browser with: %s",pplotcmd);fflush(stdout); + system(pplotcmd); } else if (z[0] == 'g') system(plotcmd); else if (z[0] == 'q') exit(0); } - end: +end: while (z[0] != 'q') { - printf("\nType q for exiting: "); + printf("\nType q for exiting: "); fflush(stdout); scanf("%s",z); } + printf("End\n"); + exit(0); } - - -